GENE PREDICTIONS on WHOLE GENOMES

Summary

The predictions available on this page have been obtained by using the gene-finding software geneid and SGP2. SGP2 combines geneid predictions with tblastx comparison of a query genome from one species (i.e. human) against an informant genome of another species (i.e. from mouse).

Available precomputed whole-genome prediction data sets:

Vertebrates

Invertebrates

Forthcoming

Homo sapiens

`geneid`

Genome Version:	goldenPath. December 2013 hg38 human genome assembly (GRCh38). Predictions were obtained on the masked version of the genome.
`geneid` Version:	version_1.4.
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath. March 2006 hg19 human genome assembly (GRCh37). Predictions were obtained on the masked version of the genome.
`geneid` Version:	version_1.3.
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath. March 2006 hg18 human genome assembly (NCBI Build 36). Predictions were obtained on the masked version of the genome.
`geneid` Version:	version_1.2.
Parameter File:	human3iso20060220.param
Predictions Set:	Follow this link

Genome Version:	goldenPath. May 2004 hg17 human genome assembly (NCBI Build 35). Predictions were obtained on the masked version of the genome.
`geneid` Version:	version_1.2.
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath. July 2003 hg16 human genome assembly (NCBI Build 34). Predictions were obtained on the masked version of the genome.
`geneid` Version:	version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath. April 2003 hg15 human genome assembly (NCBI Build 33). Predictions were obtained on the masked version of the genome.
`geneid` Version:	version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath (November 14, 2002). November 2002 hg13 human genome assembly (NCBI Build 31). Predictions were obtained on the masked version of the genome.
`geneid` Version:	version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath (June 28, 2002). June 2002 hg12 human genome assembly (NCBI Build 30). Predictions were obtained on the masked version of the genome.
`geneid` Version:	version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath (April 5, 2002). April 2002 hg11 human genome assembly (NCBI Build 29). Predictions were obtained on the masked version of the genome.
`geneid` Version:	version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath (December 22, 2001). Predictions were obtained on the masked version of the genome.
`geneid` Version:	version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	Ensembl 8_30 (September 2, 2002). Predictions were obtained on the masked version of the genome.
`geneid` Version:	version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	Ensembl 7_29 (July 1, 2002). Predictions were obtained on the masked version of the genome.
`geneid` Version:	version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	Ensembl 4_28 (March 7, 2002). Predictions were obtained on the masked version of the genome.
`geneid` Version:	version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

`sgp2` : Human vs Rat

Genome Versions:	<Human> goldenPath (hg15, April 2003). <Rat> goldenPath (rnJun2003, June, 2003). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome (hg15) against the Rat genome (rn3.1).
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Versions:	<Human> goldenPath (hg15, April 2003). <Rat> goldenPath (rnJan2003, January, 2003). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome (hg15) against the Rat genome (rn2.1).
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Versions:	<Human> goldenPath (hg13, November 14, 2002). <Rat> goldenPath (rnJan2003, January, 2003). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome (hg15) against the Rat genome (rn2.1).
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Versions:	<Human> goldenPath (hg12, June 28, 2002). <Rat> goldenPath (rnNov2002, November, 2002). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome (hg12) against the Rat genome (rn2.0).
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

`sgp2` : Human vs Mouse

Genome Versions:	<Human> goldenPath (hg38, December 2013). <Mouse> goldenPath (mm10, December 2011). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome (hg38) against the Mouse genome (mm10).
`sgp2` Version	`geneid` version_1.4
Parameter File:	human3iso.sgp.Hs-Mm.param
Predictions Set:	Follow this link

Genome Versions:	<Human> goldenPath (hg19, February 2009). <Mouse> goldenPath (mm9, July 2007). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome (hg19) against the Mouse genome (mm9).
`sgp2` Version	`geneid` version_1.3
Parameter File:	human3iso.sgp.Hs-Mm.param
Predictions Set:	Follow this link

Genome Versions:	<Human> goldenPath (hg18, March 2006). <Mouse> goldenPath (mm9, July 2007). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome (hg18) against the Mouse genome (mm9).
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Hs-Mm.param
Predictions Set:	Follow this link

Genome Versions:	<Human> goldenPath (hg18, March 2006). <Mouse> goldenPath (mm8, March 2006). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome (hg18) against the Mouse genome (mm8).
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Hs-Mm.param
Predictions Set:	Follow this link

Genome Versions:	<Human> goldenPath (hg18, March, 2006). <Mouse> goldenPath (mm7, Aug 2005). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome (hg18) against the Mouse genome (mm7).
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Hs-Mm.param
Predictions Set:	Follow this link

Genome Versions:	<Human> goldenPath (hg17, May 2004). <Mouse> goldenPath (mm7, Aug 2005). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome (hg17) against the Mouse genome (mm7).
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Hs-Mm.param
Predictions Set:	Follow this link

Genome Versions:	<Human> goldenPath (hg17, May 2004). <Mouse> goldenPath (mm6, March 2005). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome (hg17) against the Mouse genome (mm6).
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Hs-Mm.param
Predictions Set:	Follow this link

Genome Versions:	<Human> goldenPath (hg17, May 2004). <Mouse> goldenPath (mm5, May 2004). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome (hg17) against the Mouse genome (mm5).
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Hs-Mm.param
Predictions Set:	Follow this link

Genome Versions:	<Human> goldenPath (hg16, July 2003). <Mouse> goldenPath (mm4, November 2003). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome (hg16) against the Mouse genome (mm4).
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Versions:	<Human> goldenPath (hg16, July 2003). <Mouse> goldenPath (February, 2003). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome (hg16) against the Mouse genome (mm3.1).
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Versions:	<Human> goldenPath (hg15, April 2003). <Mouse> goldenPath (February, 2003). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome (hg15) against the Mouse genome (mm3.1).
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Versions:	<Human> goldenPath (hg13, November 14, 2002). <Mouse> goldenPath (February, 2003). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome (hg13) against the Mouse genome (mm3.1).
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Versions:	<Human> goldenPath (hg13, November 14, 2002). <Mouse> goldenPath (February, 2002). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome (hg13) against the Mouse genome (mm3).
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Versions:	<Human> goldenPath (hg12, June 28, 2002). <Mouse> goldenPath (February, 2002). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome (hg12) against the Mouse genome (mm3).
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Versions:	<Human> goldenPath (December 22, 2001). <Mouse> goldenPath (February, 2002). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome against the Mouse genome.
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Versions:	<Human> goldenPath (August 6, 2001). <Mouse> sanger_phusion_20011109 (9th of November 2001). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Human genome against the Mouse genome.
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Mus musculus

`geneid`

Genome Version:	goldenPath (mm10, Dec 2011). Predictions were obtained on the masked version of the genome. These are the predictions for the mm10 version of the mouse genome assembly.
`geneid` Version:	version_1.4
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath (mm9, July 2007). Predictions were obtained on the masked version of the genome. These are the predictions for the mm9 version of the mouse genome assembly.
`geneid` Version:	version_1.2
Parameter File:	human3iso20060220.param
Predictions Set:	Follow this link

Genome Version:	goldenPath (mm8, March 2006). Predictions were obtained on the masked version of the genome. These are the predictions for the mm8 version of the mouse genome assembly.
`geneid` Version:	version_1.2
Parameter File:	human3iso20060220.param
Predictions Set:	Follow this link

Genome Version:	goldenPath (mm7, August 2005). Predictions were obtained on the masked version of the genome. These are the predictions for the mm7 version of the mouse genome assembly.
`geneid` Version:	version_1.2
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath (mm6, March 2005). Predictions were obtained on the masked version of the genome. These are the predictions for the mm6 version of the mouse genome assembly.
`geneid` Version:	version_1.2
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath (mm5, May 2004). Predictions were obtained on the masked version of the genome. These are the predictions for the mm5 version of the mouse genome assembly.
`geneid` Version:	version_1.2
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath (mm4, November 2003). Predictions were obtained on the masked version of the genome. These are the predictions for the mm4 version of the mouse genome assembly.
`geneid` Version:	version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath (February, 2003). Predictions were obtained on the masked version of the genome. These are the predictions for the mm3.1 version of the mouse genome assembly.
`geneid` Version:	version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath (February, 2002). Predictions were obtained on the masked version of the genome. These are the predictions for the mm2 version of the mouse genome assembly.
`geneid` Version:	version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	Ensembl 5_3 (1st of May 2002). Predictions were obtained on the masked version of the genome.
`geneid` Version:	version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	Ensembl 4_1 (7th of March 2002). Predictions were obtained on the masked version of the genome.
`geneid` Version:	version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

`sgp2` : Mouse vs Human

Genome Versions:	<Mouse> goldenPath (mm10, Dec 2011). <Human> goldenPath. December 2013 hg38 human genome assembly. Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the mouse genome (mm10) against the Human genome (hg38).
`sgp2` Version	`geneid` version_1.4
Parameter File:	human3iso.sgp.Hs-Mm.param
Predictions Set:	Follow this link

Genome Versions:	<Mouse> goldenPath (mm9, July 2007). <Human> goldenPath. March 2006 hg18 human genome assembly (NCBI Build 36). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the mouse genome (mm9) against the Human genome (hg18).
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Hs-Mm.param
Predictions Set:	Follow this link

Genome Versions:	<Mouse> goldenPath (mm8, March 2006). <Human> goldenPath. March 2006 hg18 human genome assembly (NCBI Build 36). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the mouse genome (mm8) against the Human genome (hg18).
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Hs-Mm.param
Predictions Set:	Follow this link

Genome Versions:	<Mouse> goldenPath (mm7, August 2005). <Human> goldenPath. March 2006 hg18 human genome assembly (NCBI Build 36). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the mouse genome (mm7) against the Human genome (hg18).
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Hs-Mm.param
Predictions Set:	Follow this link

Genome Versions:	<Mouse> goldenPath (mm7, August 2005). <Human> goldenPath. May 2004 hg17 human genome assembly (NCBI Build 35). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the mouse genome (mm7) against the Human genome (hg17).
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Hs-Mm.param
Predictions Set:	Follow this link

Genome Versions:	<Mouse> goldenPath (mm6, March 2005). <Human> goldenPath. May 2004 hg17 human genome assembly (NCBI Build 35). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the mouse genome (mm6) against the Human genome (hg17).
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Hs-Mm.param
Predictions Set:	Follow this link

Genome Versions:	<Mouse> goldenPath (mm5, May 2004). <Human> goldenPath. May 2004 hg17 human genome assembly (NCBI Build 35). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the mouse genome (mm5) against the Human genome (hg17).
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Hs-Mm.param
Predictions Set:	Follow this link

Genome Versions:	<Mouse> goldenPath (mm4, November 2003). <Human> goldenPath. July 2003 hg16 human genome assembly (NCBI Build 34). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the mouse genome (mm4) against the Human genome (hg16).
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.sgp.Hs-Mm.param
Predictions Set:	Follow this link

Genome Versions:	<Mouse> goldenPath (February, 2003). <Human> goldenPath. April 2003 hg15 human genome assembly (NCBI Build 33). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the mouse genome (mm3.1) against the Human genome (hg15).
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Versions:	<Mouse> goldenPath (February, 2003). <Human> goldenPath (November 14, 2002). November 2002 hg13 human genome assembly (NCBI Build 31). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the mouse genome (mm3.1) against the Human genome (hg13).
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Versions:	<Mouse> goldenPath (February, 2002). <Human> goldenPath (November 14, 2002). November 2002 hg13 human genome assembly (NCBI Build 31). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the mouse genome (mm3) against the Human genome (hg13).
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Versions:	<Mouse> goldenPath (February, 2002). <Human> goldenPath (28th of June 2002). June 2002 hg12 human genome assembly (NCBI Build 30). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Mouse genome (mm3) against the Human genome (hg12).
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Versions:	<Mouse> goldenPath (February, 2002). <Human> goldenPath (22nd of December 2001). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Mouse genome against the Human genome. NOTE: For `SGP-evid` predictions, coordinates of `RefSeq` genes were considered so that `SGP2` (`geneid`) would not make any predictions in those regions. This allows for `SGP2` to make predictions between already known (`RefSeq`) genes with higher accuracy.
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Versions:	<Mouse> goldenPath (February, 2002). <Human> goldenPath (22nd of December 2001). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the mouse genome against the Human genome.
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Rattus norvegicus

`geneid`

Genome Version:	goldenPath (rnJul2014). Predictions were obtained on the masked version of the genome. These are the predictions for the Jul 2014 version (rn4) of the rat genome assembly.
`geneid` Version:	version_1.4
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath (rnNov2004, Nov, 2004). Predictions were obtained on the masked version of the genome. These are the predictions for the Nov 2004 version (rn4) of the rat genome assembly.
`geneid` Version:	version_1.2
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath (rnJun2003, June, 2003). Predictions were obtained on the masked version of the genome. These are the predictions for the Jun 2003 version (3.1) of the rat genome assembly.
`geneid` Version:	version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath (rnJan2003, January, 2003). Predictions were obtained on the masked version of the genome. These are the predictions for the Jan2003 version (2.1) of the rat genome assembly.
`geneid` Version:	version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath (rnNov2002, November, 2002). Predictions were obtained on the masked version of the genome. These are the predictions for the Nov2002 version (2.0) of the rat genome assembly.
`geneid` Version:	version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

`sgp2` : Rat vs Human

Genome Versions:	<Rat> goldenPath (rnJul2014). <Human> goldenPath. Dec 2013 hg38 human genome assembly. Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Rat genome (rn6) against the Human (hg38) genome.
`sgp2` Version	`geneid` version_1.4
Parameter File:	human3iso.sgp.Hs-Mm.param
Predictions Set:	Follow this link

Genome Versions:	<Rat> goldenPath (rnNov2004, November, 2004). <Human> goldenPath. March 2006 hg18 human genome assembly (NCBI Build 36). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Rat genome (rn4) against the Human (hg18) genome.
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Hs-Mm.param
Predictions Set:	Follow this link

Genome Versions:	<Rat> goldenPath (rnJun2003, June, 2003). <Human> goldenPath (April 10, 2003). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Rat genome against the Human genome.
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Versions:	<Rat> goldenPath (rnJan2003, January, 2003). <Human> goldenPath (10th of April 2003). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Rat genome against the Human genome.
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Versions:	<Rat> goldenPath (rnJan2003, January, 2003). <Human> goldenPath (November 14, 2002). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Rat genome against the Human genome.
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Versions:	<Rat> goldenPath (rnNov2002, November, 2002). <Human> goldenPath (June 28, 2002). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Rat genome against the Human genome.
`sgp2` Version	`geneid` version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Gallus gallus

`geneid`

Genome Version:	goldenPath (February, 2004). Predictions were obtained on the masked version of the genome. These are the predictions for the Feb.2004 version of the Chicken genome assembly produced at the Genome Sequencing Center at Washington University in St. Louis.
`geneid` Version:	version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

`sgp2` : Chicken vs Human

Genome Versions:	<Chicken> goldenPath (February, 2004). These are the predictions for the Feb.2004 version of the Chicken genome assembly produced at the Genome Sequencing Center at Washington University in St. Louis. <Human> goldenPath. May 2004 hg17 human genome assembly (NCBI Build 35). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Chicken genome (ggalFeb2004) against the Human genome (hg17).
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Gg-Hs.param
Predictions Set:	Follow this link

Genome Versions:	<Chicken> goldenPath (February, 2004). These are the predictions for the Feb.2004 version of the Chicken genome assembly produced at the Genome Sequencing Center at Washington University in St. Louis. <Human> goldenPath. July 2003 hg16 human genome assembly (NCBI Build 34). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Chicken genome (ggalFeb2004) against the Human genome (hg16).
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Gg-Hs.param
Predictions Set:	Follow this link

`sgp2` : Chicken vs Human+Cow

Genome Versions:	<Chicken> goldenPath (February, 2004). Predictions were obtained on the masked version of the genome. These are the predictions for the Feb.2004 version of the Chicken genome assembly produced at the Genome Sequencing Center at Washington University in St. Louis. <Cow + Human> Cow: goldenPath (Btau2, March 2005). Human: goldenPath (hg17-ncbi 35-May 2004). NOTE: These `SGP2` predictions combine `geneid` predictions with `tblastx` comparison of the Chicken genome (ggalFeb2004) against the Human and Cow genomes (SRs -similarity regions- i.e. homology evidences from both species to G.gallus were combined).
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Gg-Bt_Hs.param
Predictions Set:	Follow this link

`sgp2` : Chicken vs Cow

Genome Versions:	<Chicken> goldenPath (February, 2004). These are the predictions for the Feb.2004 version of the Chicken genome assembly produced at the Genome Sequencing Center at Washington University in St. Louis. <Cow> goldenPath (Btau2, March 2005). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Chicken genome (ggalFeb2004) against the Cow genome (Btau2).
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Gg-Bt.param
Predictions Set:	Follow this link

Pan troglodytes

`geneid`

Genome Version:	goldenPath (November, 2003). Predictions were obtained on the masked version of the genome. These are the predictions for the Nov. 13 2003 version of the ARACHNE assembly of the chimpanzee genome, produced by the Chimpanzee Sequencing Consortium.
`geneid` Version:	version_1.1
Parameter File:	human3iso.param
Predictions Set:	Follow this link

`sgp2`

Sorry, no sgp2 results
available for this species.

Felis catus

`geneid`

Genome Version:	goldenPath (March, 2006). Predictions were obtained on the masked version of the genome. These are the predictions for the March 2006 version of the BROAD release 3 assembly of the cat genome, produced by the Broad Institute.
`geneid` Version:	version_1.2
Parameter File:	human3iso.param
Predictions Set:	Follow this link

`sgp2` Cat vs Mouse

Genome Versions:	<Cat> goldenPath (felCat3, March 2006). <Mouse> goldenPath (mm8, March, 2006). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Cat (felCat3) genome against the Mouse genome (mm8).
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Hs-Bt_NEW.param
Predictions Set:	Follow this link

Equus caballus

`geneid`

Genome Version:	goldenPath (equCab1, January, 2007). Predictions were obtained on the masked version of the genome. These are the predictions for the January 2007 version of the BROAD assembly of the horse genome, produced by the Broad Institute.
`geneid` Version:	version_1.2
Parameter File:	human3iso.param
Predictions Set:	Follow this link

`sgp2` Horse vs Mouse

Genome Versions:	<Horse> goldenPath (equCab1, January 2007). <Mouse> goldenPath (mm8, March, 2006). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Horse (equCab1) genome against the Mouse genome (mm8).
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Hs-Mm_NEW.param
Predictions Set:	Follow this link

Macaca mulatta

`geneid`

Genome Version:	goldenPath (rheMac2, January, 2006). Predictions were obtained on the masked version of the genome. These are the predictions for the January 2006 version of the Baylor assembly of the rhesus monkey genome, produced by the Baylor College of Medicine Human Genome Sequencing Center.
`geneid` Version:	version_1.2
Parameter File:	human3iso.param
Predictions Set:	Follow this link

`sgp2` Rhesus Monkey vs Mouse

Genome Versions:	<Monkey> goldenPath (rheMac2, January, 2006). <Mouse> goldenPath (mm8, March, 2006). Predictions were obtained on the masked version of both genomes. `tblastx` comparison of the Monkey (rheMac2) genome against the Mouse genome (mm8).
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Hs-Mm_NEW.param
Predictions Set:	Follow this link

Cavia porcellus

`geneid`

Genome Version:	goldenPath (February, 2008). Predictions were obtained on the masked version of the genome. These are the predictions for the Feb 2008 assembly of the guinea pig genome (cavPor3) obtained from the Broad Institute.
`geneid` Version:	version_1.3
Parameter File:	human3iso.param
Predictions Set:	Follow this link

`sgp2`

Sorry, no sgp2 results
available for this species.

Loxodonta africana

`geneid`

Genome Version:	goldenPath (May, 2005). Predictions were obtained on the masked version of the genome. These are the predictions for the May 2005 assembly of the elephant genome (loxAfr1) obtained from the Broad Institute.
`geneid` Version:	version_1.2
Parameter File:	human3iso20060220.param
Predictions Set:	Follow this link

`sgp2`

Sorry, no sgp2 results
available for this species.

Oryctolagus cuniculus

`geneid`

Genome Version:	goldenPath (May, 2005). Predictions were obtained on the masked version of the genome. These are the predictions for the May 2005 assembly of the rabbit genome (oryCun1) obtained from the Broad Institute.
`geneid` Version:	version_1.2
Parameter File:	human3iso20060220.param
Predictions Set:	Follow this link

`sgp2`

Sorry, no sgp2 results
available for this species.

Dasypus novemcinctus

`geneid`

Genome Version:	goldenPath (May, 2005). Predictions were obtained on the masked version of the genome. These are the predictions for the May 2005 assembly of the armadillo genome (dasNov1) obtained from the Broad Institute.
`geneid` Version:	version_1.2
Parameter File:	human3iso20060220.param
Predictions Set:	Follow this link

`sgp2`

Sorry, no sgp2 results
available for this species.

Echinops telfairi

`geneid`

Genome Version:	goldenPath (July, 2005). Predictions were obtained on the masked version of the genome. These are the predictions for the July 2005 assembly of the tenrec genome (echTel1) obtained from the Broad Institute.
`geneid` Version:	version_1.2
Parameter File:	human3iso20060220.param
Predictions Set:	Follow this link

`sgp2`

Sorry, no sgp2 results
available for this species.

Petromyzon marinus

`geneid`

Genome Version:	goldenPath (March, 2007). Predictions were obtained on the masked version of the genome. These are the predictions for the March 2007 assembly of the lamprey genome (petMar1) obtained from the Genome Sequencing Center at the Washington University School of Medicine in St. Louis.
`geneid` Version:	version_1.3
Parameter File:	human3iso20060220.param
Predictions Set:	Follow this link

`sgp2`

Sorry, no sgp2 results
available for this species.

Branchiostoma floridae

`geneid`

Genome Version:	goldenPath (March, 2006). Predictions were obtained on the masked version of the genome. These are the predictions for the March 2006 assembly of the lancelet genome (braFlo1) obtained from the US DOE Joint Genome Institute (JGI).
`geneid` Version:	version_1.3
Parameter File:	human3iso20060220.param
Predictions Set:	Follow this link

`sgp2`

Sorry, no sgp2 results
available for this species.

Bos taurus

`geneid`

Genome Version:	goldenPath (Dec 2009). Predictions were obtained on the masked version of the genome. These are the predictions for the December 2009 Cow genome assembly (bosTau8) produced by the Baylor College of Medicine Human Genome Sequencing Center.
`geneid` Version:	version_1.4
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	hgsc (August, 2006). Predictions were obtained on the masked version of the genome. These are the predictions for the August 2006 Cow genome assembly (bosTau3) produced by the Baylor College of Medicine Human Genome Sequencing Center.
`geneid` Version:	version_1.2
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath (March, 2005). Predictions were obtained on the masked version of the genome. These are the predictions for the March 2005 Cow genome assembly (bosTau2) produced by the Baylor College of Medicine Human Genome Sequencing Center.
`geneid` Version:	version_1.2
Parameter File:	human3iso.param
Predictions Set:	Follow this link

Genome Version:	goldenPath (September, 2004). Predictions were obtained on the masked version of the genome. These are the predictions for the September 2004 Cow genome assembly (bosTau1) produced by the Baylor College of Medicine Human Genome Sequencing Center.
`geneid` Version:	version_1.2
Parameter File:	human3iso.param
Predictions Set:	Follow this link

`sgp2` : Cow vs Human (or Mouse)

Genome Versions:	<Cow> hgsc (December, 2009). <Human> goldenPath (December, 2013). Predictions obtained on the masked version of both genomes. `tblastx` comparison of the Human genome against the Cow (Btau8) genome.
`sgp2` Version	`geneid` version_1.4
Parameter File:	human3iso.sgp.Hs-Bt.param
Predictions Set:	Follow this link

Genome Versions:	<Cow> hgsc (August, 2006). <Mouse> goldenPath (July, 2007). Predictions obtained on the masked version of both genomes. `tblastx` comparison of the Mouse genome against the Cow (Btau3) genome.
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Hs-Bt.param
Predictions Set:	Follow this link

Genome Versions:	<Cow> hgsc (August, 2006). <Mouse> goldenPath (March, 2006). Predictions obtained on the masked version of both genomes. `tblastx` comparison of the Mouse genome against the Cow (Btau3) genome.
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Hs-Bt.param
Predictions Set:	Follow this link

Genome Versions:	<Cow> goldenPath (March, 2005). <Mouse> goldenPath (March, 2005). Predictions obtained on the masked version of both genomes. `tblastx` comparison of the Mouse genome against the Cow (Btau2) genome.
`sgp2` Version	`geneid` version_1.2
Parameter File:	human3iso.sgp.Hs-Bt.param
Predictions Set:	Follow this link

Drosophila melanogaster

`geneid`

Genome Version:	goldenPath (April 2004). Release 4 (Apr. 2004, UCSC version dm2) assembly of the Drosophila melanogaster genome. Predictions were obtained on the unmasked version of the genome.
`geneid` Version:	version_1.2
Parameter File:	drosophilaENS.param
Predictions Set:	Follow this link

Genome Version:	Ensembl 4_3 (7th of March 2002). Predictions were obtained on the masked version of the genome.
`geneid` Version:	version_1.1
Parameter File:	dros.param
Predictions Set:	Follow this link

`sgp2`

Sorry, no sgp2 results
available for this species.

Drosophila simulans

`geneid`

Genome Version:	goldenPath Apr. 2005 freeze of the D. simulans genome (droSim1) from the Genome Sequencing Center at Washington University School of Medicine in St. Louis. Predictions were obtained on the unmasked version of the genome.
`geneid` Version:	version_1.2
Parameter File:	drosophilaENS.param
Predictions Set:	Follow this link

`sgp2`

Sorry, no sgp2 results
available for this species.

Drosophila mojavensis

`geneid`

Genome Version:	goldenPath. Drosophila mojavensis 11 August 2004 assembly from Agencourt. Predictions were obtained on the unmasked version of the genome.
`geneid` Version:	version_1.2
Parameter File:	drosophilaENS.param
Predictions Set:	Follow this link

`sgp2`

Sorry, no sgp2 results
available for this species.

Drosophila pseudoobscura

`geneid`

Genome Version:	goldenPath. Drosophila pseudoobscura Flybase Release 1.0 assembly (Nov. 2004). Predictions were obtained on the unmasked version of the genome.
`geneid` Version:	version_1.2
Parameter File:	drosophilaENS.param
Predictions Set:	Follow this link

`sgp2`

Sorry, no sgp2 results
available for this species.

Drosophila ananassae

`geneid`

Genome Version:	goldenPath. Drosophila ananassae 15 July 2004 assembly from TIGR. Predictions were obtained on the unmasked version of the genome.
`geneid` Version:	version_1.2
Parameter File:	drosophilaENS.param
Predictions Set:	Follow this link

`sgp2`

Sorry, no sgp2 results
available for this species.

Drosophila yakuba

`geneid`

Genome Version:	goldenPath. Apr. 2004 freeze of the D. yakuba genome (droYak1) from the Genome Sequencing Center at Washington University School of Medicine in St. Louis. Predictions were obtained on the unmasked version of the genome.
`geneid` Version:	version_1.2
Parameter File:	drosophilaENS.param
Predictions Set:	Follow this link

`sgp2`

Sorry, no sgp2 results
available for this species.

Drosophila virilis

`geneid`

Genome Version:	goldenPath. Drosophila virilis 12 July 2004 assembly from Agencourt Bioscience Corporation. Predictions were obtained on the unmasked version of the genome.
`geneid` Version:	version_1.2
Parameter File:	drosophilaENS.param
Predictions Set:	Follow this link

`sgp2`

Sorry, no sgp2 results
available for this species.

Anopheles gambiae

`geneid`

Genome Version:	goldenPath. Feb. 2003 assembly of the A. gambiae genome (anoGam1) from the International Anopheles Genome Project (version MOZ2). Predictions were obtained on the masked version of the genome.
`geneid` Version:	version_1.2
Parameter File:	drosophilaENS.param
Predictions Set:	Follow this link

`sgp2`

Sorry, no sgp2 results
available for this species.

Apis mellifera

`geneid`

Genome Version:	goldenPath. Jan. 2005 assembly of the A. mellifera genome (apiMel2) from the Baylor College of Medicine HGSC Honey Bee Genome Project. Predictions were obtained on the unmasked version of the genome.
`geneid` Version:	version_1.2
Parameter File:	BeeENS.param
Predictions Set:	Follow this link

`sgp2`

Sorry, no sgp2 results
available for this species.

Tetraodon nigroviridis

`geneid`

Genome Version:	tetNig1 (February 2004). February 2004 freeze of the Tetraodon nigroviridis version 7 (V7) genome assembly (UCSC version tetNig1) provided by Genoscope. Predictions were obtained on the masked version of the genome.
`geneid` Version:	version_1.2
Parameter File:	tetramarkov4d.param
Predictions Set:	Follow this link

`sgp2`

Sorry, no sgp2 results
available for this species.

Caenorhabditis elegans

`geneid`

Genome Version:	WS120 (March 2004). C. elegans version WS120 deposited into Wormbase as of 1 March 2004. Predictions were obtained on the masked version of the genome.
`geneid` Version:	version_1.2
Parameter File:	celegans1.2.param
Predictions Set:	Follow this link

`sgp2`

Sorry, no sgp2 results
available for this species.

Fugu rubripes

`geneid`

Sorry, no geneid results
available for this species.

`sgp2`

Sorry, no sgp2 results
available for this species.

Dictyostelium discoideum

`geneid`

Sorry, no geneid results
available for this species.

`sgp2`

Sorry, no sgp2 results
available for this species.

GENOME BIOINFORMATICS RESEARCH LAB

GENE PREDICTIONS on WHOLE GENOMES

Summary

Contents

Vertebrates

Invertebrates

Forthcoming

Homo sapiens

geneid

sgp2 : Human vs Rat

sgp2 : Human vs Mouse

Mus musculus

geneid

sgp2 : Mouse vs Human

Rattus norvegicus

geneid

sgp2 : Rat vs Human

Gallus gallus

geneid

sgp2 : Chicken vs Human

sgp2 : Chicken vs Human+Cow

sgp2 : Chicken vs Cow

Pan troglodytes

geneid

sgp2

Felis catus

geneid

sgp2 Cat vs Mouse

Equus caballus

geneid

sgp2 Horse vs Mouse

Macaca mulatta

geneid

sgp2 Rhesus Monkey vs Mouse

Cavia porcellus

geneid

sgp2

Loxodonta africana

geneid

sgp2

Oryctolagus cuniculus

geneid

sgp2

Dasypus novemcinctus

geneid

sgp2

Echinops telfairi

geneid

sgp2

Petromyzon marinus

geneid

sgp2

Branchiostoma floridae

geneid

sgp2

Bos taurus

geneid

sgp2 : Cow vs Human (or Mouse)

Drosophila melanogaster

geneid

sgp2

Drosophila simulans

geneid

sgp2

Drosophila mojavensis

geneid

sgp2

Drosophila pseudoobscura

geneid

sgp2

Drosophila ananassae

geneid

sgp2

Drosophila yakuba

geneid

sgp2

Drosophila virilis

geneid

sgp2

Anopheles gambiae

`geneid`

`sgp2` : Human vs Rat

`sgp2` : Human vs Mouse

`geneid`

`sgp2` : Mouse vs Human

`geneid`

`sgp2` : Rat vs Human

`geneid`

`sgp2` : Chicken vs Human

`sgp2` : Chicken vs Human+Cow

`sgp2` : Chicken vs Cow

`geneid`

`sgp2`

`geneid`

`sgp2` Cat vs Mouse

`geneid`

`sgp2` Horse vs Mouse

`geneid`

`sgp2` Rhesus Monkey vs Mouse

`geneid`

`sgp2`

`geneid`

`sgp2`

`geneid`

`sgp2`

`geneid`

`sgp2`

`geneid`

`sgp2`

`geneid`

`sgp2`

`geneid`

`sgp2`

`geneid`

`sgp2` : Cow vs Human (or Mouse)

`geneid`

`sgp2`

`geneid`

`sgp2`

`geneid`

`sgp2`

`geneid`

`sgp2`

`geneid`

`sgp2`

`geneid`

`sgp2`

`geneid`

`sgp2`

`geneid`

`sgp2`

`geneid`

`sgp2`

`geneid`

`sgp2`

`geneid`

`sgp2`

`geneid`

`sgp2`

`geneid`

`sgp2`