Gsx2 (GS homeobox 2) - Rat Genome Database

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Gene: Gsx2 (GS homeobox 2) Rattus norvegicus
Analyze
Symbol: Gsx2
Name: GS homeobox 2
RGD ID: 1308047
Description: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and sequence-specific double-stranded DNA binding activity. Predicted to be involved in generation of neurons and olfactory bulb development. Predicted to act upstream of or within several processes, including nervous system development; positive regulation of Notch signaling pathway; and positive regulation of oligodendrocyte differentiation. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Orthologous to human GSX2 (GS homeobox 2); INTERACTS WITH bisphenol A; Cuprizon; valproic acid.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: genomic screened homeo box 2; Gsh2; LOC364140
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81433,477,968 - 33,480,320 (-)NCBIGRCr8
GRCr8 Ensembl1433,477,968 - 33,480,320 (-)EnsemblGRCr8 Ensembl
mRatBN7.21433,123,799 - 33,126,151 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1433,124,381 - 33,126,105 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1433,474,374 - 33,476,721 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01434,782,183 - 34,784,530 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01433,267,435 - 33,269,782 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01435,650,985 - 35,652,709 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1435,650,985 - 35,652,709 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01435,479,361 - 35,481,085 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41435,489,441 - 35,491,165 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1432,394,600 - 32,396,324 (-)NCBICelera
RGSC_v3.11435,489,434 - 35,491,334 (-)NCBI
Cytogenetic Map14p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IEA,ISO)
nucleus  (IBA,IEA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:7619729   PMID:9398437   PMID:11060228   PMID:11124115   PMID:11731457   PMID:12724834   PMID:12930780   PMID:15930101   PMID:16715081   PMID:18701439   PMID:23042297   PMID:31412107  


Genomics

Comparative Map Data
Gsx2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81433,477,968 - 33,480,320 (-)NCBIGRCr8
GRCr8 Ensembl1433,477,968 - 33,480,320 (-)EnsemblGRCr8 Ensembl
mRatBN7.21433,123,799 - 33,126,151 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1433,124,381 - 33,126,105 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1433,474,374 - 33,476,721 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01434,782,183 - 34,784,530 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01433,267,435 - 33,269,782 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01435,650,985 - 35,652,709 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1435,650,985 - 35,652,709 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01435,479,361 - 35,481,085 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41435,489,441 - 35,491,165 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1432,394,600 - 32,396,324 (-)NCBICelera
RGSC_v3.11435,489,434 - 35,491,334 (-)NCBI
Cytogenetic Map14p11NCBI
GSX2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38454,100,163 - 54,102,498 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl454,099,523 - 54,102,498 (+)EnsemblGRCh38hg38GRCh38
GRCh37454,966,330 - 54,968,665 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36454,660,955 - 54,662,879 (+)NCBINCBI36Build 36hg18NCBI36
Celera452,465,927 - 52,467,801 (+)NCBICelera
Cytogenetic Map4q12NCBI
HuRef450,913,211 - 50,915,085 (+)NCBIHuRef
CHM1_1455,001,958 - 55,003,832 (+)NCBICHM1_1
T2T-CHM13v2.0457,587,414 - 57,589,749 (+)NCBIT2T-CHM13v2.0
Gsx2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39575,236,262 - 75,238,554 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl575,236,262 - 75,238,554 (+)EnsemblGRCm39 Ensembl
GRCm38575,075,601 - 75,077,893 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl575,075,601 - 75,077,893 (+)EnsemblGRCm38mm10GRCm38
MGSCv37575,471,626 - 75,473,918 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36575,357,298 - 75,359,590 (+)NCBIMGSCv36mm8
Celera572,359,931 - 72,362,223 (+)NCBICelera
Cytogenetic Map5C3.3NCBI
cM Map539.55NCBI
Gsx2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495544716,714,870 - 16,715,757 (-)NCBIChiLan1.0ChiLan1.0
GSX2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2375,691,400 - 75,693,735 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1475,896,315 - 75,898,641 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0469,837,643 - 69,840,101 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1476,397,771 - 76,399,715 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl476,397,180 - 76,399,715 (-)Ensemblpanpan1.1panPan2
GSX2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11346,640,172 - 46,642,405 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1346,640,172 - 46,641,546 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1346,597,718 - 46,599,873 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01347,250,450 - 47,252,604 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1347,250,428 - 47,252,675 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11346,923,091 - 46,925,239 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01346,455,303 - 46,457,455 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01347,328,642 - 47,330,797 (+)NCBIUU_Cfam_GSD_1.0
Gsx2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528529,591,982 - 29,594,299 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648216,704,193 - 16,705,729 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648216,703,936 - 16,706,224 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GSX2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl840,881,552 - 40,883,995 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1840,880,093 - 40,883,928 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2842,924,085 - 42,926,267 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GSX2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1714,436,848 - 14,446,197 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl714,439,371 - 14,440,944 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606615,277,429 - 15,279,859 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gsx2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476115,387,674 - 15,389,229 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476115,387,217 - 15,389,404 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Gsx2
16 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:80
Count of miRNA genes:65
Interacting mature miRNAs:70
Transcripts:ENSRNOT00000003080
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631528Scl11Serum cholesterol level QTL 114.9blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)141787564536079022Rat
7411573Bw139Body weight QTL 1394.70.001body mass (VT:0001259)body weight gain (CMO:0000420)14140068101Rat
9589814Gluco67Glucose level QTL 674.540.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14140068101Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)14939329839411170Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143123808072970315Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143067446985041098Rat
2324617Coatc2Coat color QTL 20.001coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)143112133339507682Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1433424686102238540Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14862139853621398Rat
61420Pia6Pristane induced arthritis QTL 64.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)141891545442433608Rat
7387267Uae42Urinary albumin excretion QTL 420.61urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)142252151767521517Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1411334716100078267Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)141889519263895192Rat
631262Tcas4Tongue tumor susceptibility QTL 47.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)141790672654251504Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141415516Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14862139853621398Rat

Markers in Region
Gsh2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21433,125,835 - 33,126,117 (+)MAPPERmRatBN7.2
Rnor_6.01435,652,440 - 35,652,721NCBIRnor6.0
Rnor_5.01435,480,816 - 35,481,097UniSTSRnor5.0
RGSC_v3.41435,490,896 - 35,491,177UniSTSRGSC3.4
Celera1432,396,055 - 32,396,336UniSTS
Cytogenetic Map14p11UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
ectoderm
endocrine system
endoderm
hemolymphoid system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
3 2 68 8 8 14 3 25 19 64 1 26 8 1 1

Sequence


Ensembl Acc Id: ENSRNOT00000003080   ⟹   ENSRNOP00000003080
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1433,477,968 - 33,480,320 (-)Ensembl
mRatBN7.2 Ensembl1433,124,381 - 33,126,105 (-)Ensembl
Rnor_6.0 Ensembl1435,650,985 - 35,652,709 (-)Ensembl
RefSeq Acc Id: NM_001137563   ⟹   NP_001131035
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81433,477,968 - 33,480,320 (-)NCBI
mRatBN7.21433,123,799 - 33,126,151 (-)NCBI
Rnor_6.01435,650,985 - 35,652,709 (-)NCBI
Rnor_5.01435,479,361 - 35,481,085 (-)NCBI
RGSC_v3.41435,489,441 - 35,491,165 (-)RGD
Celera1432,394,600 - 32,396,324 (-)RGD
Sequence:
RefSeq Acc Id: NP_001131035   ⟸   NM_001137563
- UniProtKB: B6RGM2 (UniProtKB/TrEMBL),   B6RGM1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000003080   ⟸   ENSRNOT00000003080
Protein Domains
Homeobox

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B6RGM2-F1-model_v2 AlphaFold B6RGM2 1-305 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308047 AgrOrtholog
BioCyc Gene G2FUF-15922 BioCyc
Ensembl Genes ENSRNOG00000002266 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000003080 ENTREZGENE
  ENSRNOT00000003080.5 UniProtKB/TrEMBL
Gene3D-CATH Homeodomain-like UniProtKB/TrEMBL
InterPro GSH2 UniProtKB/TrEMBL
  Homeobox UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeobox_region UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
KEGG Report rno:364140 UniProtKB/TrEMBL
NCBI Gene 364140 ENTREZGENE
PANTHER GS HOMEOBOX 2 UniProtKB/TrEMBL
  PTHR47421 UniProtKB/TrEMBL
Pfam Homeobox UniProtKB/TrEMBL
PhenoGen Gsx2 PhenoGen
PRINTS HOMEOBOX UniProtKB/TrEMBL
PROSITE HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000002266 RatGTEx
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain_like UniProtKB/TrEMBL
UniProt B6RGM1 ENTREZGENE, UniProtKB/TrEMBL
  B6RGM2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-04 Gsx2  GS homeobox 2  Gsh2_predicted  genomic screened homeo box 2 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-12 Gsh2_predicted  genomic screened homeo box 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED