Hoxa13 (homeo box A13) - Rat Genome Database

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Gene: Hoxa13 (homeo box A13) Rattus norvegicus
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Symbol: Hoxa13
Name: homeo box A13
RGD ID: 1562483
Description: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in embryonic hindgut morphogenesis; prostate gland development; and response to testosterone. Predicted to be located in chromosome; intermediate filament cytoskeleton; and nucleoplasm. Biomarker of hypospadias. Human ortholog(s) of this gene implicated in Guttmacher syndrome and hand-foot-genital syndrome. Orthologous to human HOXA13 (homeobox A13); INTERACTS WITH 3,7-dihydropurine-6-thione; bisphenol A; dibutyl phthalate.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: homeobox A13; homeobox protein Hox-A13; homeobox protein Hox-A13-like; LOC100910298; LOC103692142; LOC500129; RGD1562483; similar to transcription factor HOXA13
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
GRCr8482,689,566 - 82,691,701 (-)NCBIGRCr8
mRatBN7.2481,358,956 - 81,361,091 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl481,358,956 - 81,361,091 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx486,580,795 - 86,582,928 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0482,356,180 - 82,358,313 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0480,783,284 - 80,785,419 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0482,313,383 - 82,315,550 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl482,228,017 - 82,229,397 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04146,980,144 - 146,982,279 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4480,558,841 - 80,561,053NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera476,249,534 - 76,251,232 (-)NCBICelera
Cytogenetic Map4q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model



  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Hoxa13RatAnorectal Malformations  IEP 1599527mRNA:decreased expression:hindgutRGD 
Hoxa13RatAnorectal Malformations  IEP 12743602mRNA:decreased expression:rectumRGD 
Hoxa13RatCongenital Hand Deformities  ISOHOXA13 (Homo sapiens)9068941hand-foot-genital syndrome more ...RGDPMID:9020844 and REF_RGD_ID:1599526
Hoxa13Rathand-foot-genital syndrome  ISOHOXA13 (Homo sapiens)1599526hand-foot-genital syndrome and OMIM:140000RGD 
Hoxa13Rathypospadias  IEP 12743602mRNA:decreased expression:male genital tubercle RGD 
Hoxa13RatUrogenital Abnormalities  ISOHOXA13 (Homo sapiens)1599526hand-foot-genital syndrome and OMIM:140000RGD 
Object Symbol
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Qualifier
Evidence
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Reference
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Original Reference(s)
Hoxa13Ratgenetic disease  ISOHOXA13 (Homo sapiens)8554872ClinVar Annotator: match by term: Inborn genetic diseasesClinVarPMID:25741868 and PMID:28492532
Hoxa13RatGuttmacher syndrome  ISOHOXA13 (Homo sapiens)8554872ClinVar more ...ClinVarPMID:25741868 and PMID:28492532
Hoxa13Rathand-foot-genital syndrome  ISOHOXA13 (Homo sapiens)8554872ClinVar more ...ClinVarPMID:10839976 more ...
Hoxa13Ratpleomorphic xanthoastrocytoma  ISOHOXA13 (Homo sapiens)8554872ClinVar Annotator: match by term: Pleomorphic xanthoastrocytomaClinVarPMID:28299358
Object Symbol
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Qualifier
Evidence
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Reference
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Original Reference(s)
Hoxa13RatFemale Urogenital Diseases  ISOHOXA13 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:16002989
Hoxa13RatGuttmacher syndrome  ISOHOXA13 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:24239177
Hoxa13Rathand-foot-genital syndrome  ISOHOXA13 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:9020844 and PMID:24239177
Hoxa13Rathepatocellular carcinoma  ISOHOXA13 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:28284560
Object Symbol
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Original Reference(s)
Hoxa13Rathand-foot-genital syndrome  ISSHoxa13 (Mus musculus)13592920OMIM:140000MouseDO 
Object Symbol
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Original Reference(s)
Hoxa13RatGuttmacher syndrome  ISOHOXA13 (Homo sapiens)7240710 OMIM 
Hoxa13Rathand-foot-genital syndrome  ISOHOXA13 (Homo sapiens)7240710 OMIM 

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Original Reference(s)
Hoxa13Rat1,2-dimethylhydrazine increases expressionISOHoxa13 (Mus musculus)64804641 and 2-Dimethylhydrazine results in increased expression of HOXA13 mRNACTDPMID:22206623
Hoxa13Rat2,3,7,8-tetrachlorodibenzodioxine increases expressionISOHoxa13 (Mus musculus)6480464Tetrachlorodibenzodioxin results in increased expression of HOXA13 mRNACTDPMID:24058054
Hoxa13Rat2,3,7,8-tetrachlorodibenzodioxine affects expressionISOHoxa13 (Mus musculus)6480464Tetrachlorodibenzodioxin affects the expression of HOXA13 mRNACTDPMID:21570461
Hoxa13Rat3,7-dihydropurine-6-thione decreases expressionEXP 6480464Mercaptopurine results in decreased expression of HOXA13 mRNACTDPMID:23358152
Hoxa13Rat4-hydroperoxycyclophosphamide increases expressionISOHoxa13 (Mus musculus)6480464perfosfamide results in increased expression of HOXA13 mRNACTDPMID:19429390
Hoxa13Rataflatoxin B1 decreases methylationISOHOXA13 (Homo sapiens)6480464Aflatoxin B1 results in decreased methylation of HOXA13 geneCTDPMID:27153756
Hoxa13Ratall-trans-retinoic acid multiple interactionsISOHoxa13 (Mus musculus)6480464[DHRS3 gene mutant form results in increased abundance of Tretinoin] which results in decreased expression of HOXA13 mRNACTDPMID:24005908
Hoxa13Ratamosite asbestos decreases methylationISOHOXA13 (Homo sapiens)6480464Asbestos and Amosite results in decreased methylation of HOXA13 promoterCTDPMID:29626692
Hoxa13Rataristolochic acid A decreases expressionISOHOXA13 (Homo sapiens)6480464aristolochic acid I results in decreased expression of HOXA13 mRNACTDPMID:33212167
Hoxa13Ratarsane multiple interactionsISOHOXA13 (Homo sapiens)6480464[[sodium arsenite results in increased abundance of Arsenic] co-treated with [manganese chloride results in increased abundance of Manganese]] results in decreased expression of HOXA13 mRNA and [sodium arsenite results in increased abundance of Arsenic] which results in decreased expression of HOXA13 mRNACTDPMID:39836092
Hoxa13Ratarsenic atom multiple interactionsISOHOXA13 (Homo sapiens)6480464[[sodium arsenite results in increased abundance of Arsenic] co-treated with [manganese chloride results in increased abundance of Manganese]] results in decreased expression of HOXA13 mRNA and [sodium arsenite results in increased abundance of Arsenic] which results in decreased expression of HOXA13 mRNACTDPMID:39836092
Hoxa13Ratbenzo[a]pyrene increases expressionISOHOXA13 (Homo sapiens)6480464Benzo(a)pyrene results in increased expression of HOXA13 mRNACTDPMID:22316170
Hoxa13Ratbenzo[a]pyrene affects methylationISOHOXA13 (Homo sapiens)6480464Benzo(a)pyrene affects the methylation of HOXA13 exon and Benzo(a)pyrene affects the methylation of HOXA13 promoterCTDPMID:27901495
Hoxa13Ratbenzo[a]pyrene decreases methylationISOHOXA13 (Homo sapiens)6480464Benzo(a)pyrene results in decreased methylation of HOXA13 5' UTRCTDPMID:27901495
Hoxa13Ratbisphenol A decreases expressionEXP 6480464bisphenol A results in decreased expression of HOXA13 mRNACTDPMID:25181051
Hoxa13Ratbisphenol A decreases expressionISOHoxa13 (Mus musculus)6480464bisphenol A results in decreased expression of HOXA13 mRNACTDPMID:24465770
Hoxa13Ratchlorpyrifos increases expressionISOHoxa13 (Mus musculus)6480464Chlorpyrifos results in increased expression of HOXA13 mRNACTDPMID:37019170
Hoxa13Ratcopper atom multiple interactionsISOHOXA13 (Homo sapiens)6480464[NSC 689534 binds to Copper] which results in decreased expression of HOXA13 mRNACTDPMID:20971185
Hoxa13Ratcopper(0) multiple interactionsISOHOXA13 (Homo sapiens)6480464[NSC 689534 binds to Copper] which results in decreased expression of HOXA13 mRNACTDPMID:20971185
Hoxa13Ratcrocidolite asbestos decreases methylationISOHOXA13 (Homo sapiens)6480464Asbestos and Crocidolite results in decreased methylation of HOXA13 promoterCTDPMID:29626692

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Biological Process
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Original Reference(s)
Hoxa13Ratanatomical structure morphogenesis acts_upstream_of_or_withinIEAUniProtKB:Q62424 and ensembl:ENSMUSP000001252211600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxa13Ratanatomical structure morphogenesis acts_upstream_of_or_withinISOHoxa13 (Mus musculus)1624291MGI:2152356 PMID:12783783RGDPMID:12783783
Hoxa13Ratanimal organ morphogenesis acts_upstream_of_or_withinISOHoxa13 (Mus musculus)1624291MGI:1857336 PMID:10210434RGDPMID:10210434
Hoxa13Ratanimal organ morphogenesis acts_upstream_of_or_withinIEAUniProtKB:Q62424 and ensembl:ENSMUSP000001252211600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxa13Ratartery morphogenesis acts_upstream_of_or_withinIEAUniProtKB:Q62424 and ensembl:ENSMUSP000001252211600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxa13Ratartery morphogenesis acts_upstream_of_or_withinISOHoxa13 (Mus musculus)1624291MGI:2152356 PMID:18483557RGDPMID:18483557
Hoxa13Ratbranching involved in prostate gland morphogenesis acts_upstream_of_or_withinIEAUniProtKB:Q62424 and ensembl:ENSMUSP000001252211600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxa13Ratbranching involved in prostate gland morphogenesis acts_upstream_of_or_withinISOHoxa13 (Mus musculus)1624291MGI:1857336 PMID:10210434RGDPMID:10210434
Hoxa13Ratembryonic forelimb morphogenesis acts_upstream_of_or_withinISOHoxa13 (Mus musculus)1624291MGI:2150506 PMID:15733672RGDPMID:15733672
Hoxa13Ratembryonic forelimb morphogenesis acts_upstream_of_or_withinIEAUniProtKB:Q62424 and ensembl:ENSMUSP000001252211600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxa13Ratembryonic hindgut morphogenesis  IMP 1599527 RGD 
Hoxa13Ratendothelial cell fate specification acts_upstream_of_or_withinIEAUniProtKB:Q62424 and ensembl:ENSMUSP000001252211600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxa13Ratendothelial cell fate specification acts_upstream_of_or_withinISOHoxa13 (Mus musculus)1624291MGI:2152356 PMID:18483557RGDPMID:18483557
Hoxa13Ratendothelial cell morphogenesis acts_upstream_of_or_withinISOHoxa13 (Mus musculus)1624291MGI:2152356 PMID:18483557RGDPMID:18483557
Hoxa13Ratendothelial cell morphogenesis acts_upstream_of_or_withinIEAUniProtKB:Q62424 and ensembl:ENSMUSP000001252211600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxa13Ratinner ear development acts_upstream_of_or_withinIEAUniProtKB:Q62424 and ensembl:ENSMUSP000001252211600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxa13Ratinner ear development acts_upstream_of_or_withinISOHoxa13 (Mus musculus)1624291MGI:2152356 PMID:18483557RGDPMID:18483557
Hoxa13Ratmale genitalia development acts_upstream_of_or_withinISOHoxa13 (Mus musculus)1624291MGI:2152356 PMID:12783783RGDPMID:12783783
Hoxa13Ratmale genitalia development acts_upstream_of_or_withinIEAUniProtKB:Q62424 and ensembl:ENSMUSP000001252211600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxa13Ratmesenchymal cell apoptotic process acts_upstream_ofISOHoxa13 (Mus musculus)1624291MGI:2152356 PMID:12783783RGDPMID:12783783
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Cellular Component
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Original Reference(s)
Hoxa13Ratchromosome located_inIEAUniProtKB:P31271 and ensembl:ENSP000004971121600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxa13Ratchromosome located_inISOHOXA13 (Homo sapiens)1624291 RGDGO_REF:0000052
Hoxa13Ratintermediate filament cytoskeleton located_inISOHOXA13 (Homo sapiens)1624291 RGDGO_REF:0000052
Hoxa13Ratintermediate filament cytoskeleton located_inIEAUniProtKB:P31271 and ensembl:ENSP000004971121600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxa13Ratnucleoplasm located_inISOHOXA13 (Homo sapiens)1624291 RGDGO_REF:0000052
Hoxa13Ratnucleoplasm located_inIEAUniProtKB:P31271 and ensembl:ENSP000004971121600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxa13Ratnucleus located_inIEAUniRule:UR0004010371600115GO_REF:0000104UniProtGO_REF:0000104
Hoxa13Ratnucleus located_inIEAUniProtKB:Q62424 and ensembl:ENSMUSP000001252211600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxa13Ratnucleus located_inIEAUniProtKB-KW:KW-05391600115GO_REF:0000043UniProtGO_REF:0000043
Hoxa13Ratnucleus located_inISOHoxa13 (Mus musculus)1624291 PMID:15617687 and PMID:15733672RGDPMID:15617687 and PMID:15733672
Hoxa13Ratnucleus located_inIEAUniProtKB-SubCell:SL-01911600115GO_REF:0000044UniProtGO_REF:0000044
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Molecular Function
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Original Reference(s)
Hoxa13Ratcis-regulatory region sequence-specific DNA binding enablesIEAUniProtKB:Q62424 and ensembl:ENSMUSP000001252211600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxa13Ratcis-regulatory region sequence-specific DNA binding enablesISOHoxa13 (Mus musculus)1624291 PMID:27706137RGDPMID:27706137
Hoxa13RatDNA binding enablesISOHoxa13 (Mus musculus)1624291 PMID:19168674RGDPMID:19168674
Hoxa13RatDNA binding enablesIEAUniProtKB:Q62424 and ensembl:ENSMUSP000001252211600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxa13RatDNA binding enablesIEAInterPro:IPR0013561600115GO_REF:0000002InterProGO_REF:0000002
Hoxa13RatDNA binding enablesIEAUniRule:UR0004010371600115GO_REF:0000104UniProtGO_REF:0000104
Hoxa13RatDNA binding enablesIEAUniProtKB-KW:KW-0238 and UniProtKB-KW:KW-03711600115GO_REF:0000043UniProtGO_REF:0000043
Hoxa13RatDNA-binding transcription activator activity, RNA polymerase II-specific enablesIEAUniProtKB:Q62424 and ensembl:ENSMUSP000001252211600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxa13RatDNA-binding transcription activator activity, RNA polymerase II-specific enablesISOHoxa13 (Mus musculus)1624291 PMID:27706137RGDPMID:27706137
Hoxa13RatDNA-binding transcription factor activity enablesISOHoxa13 (Mus musculus)1624291 PMID:16314414RGDPMID:16314414
Hoxa13RatDNA-binding transcription factor activity enablesIEAUniProtKB:Q62424 and ensembl:ENSMUSP000001252211600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxa13RatDNA-binding transcription factor activity, RNA polymerase II-specific enablesIBAMGI:96173 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Hoxa13RatDNA-binding transcription factor activity, RNA polymerase II-specific enablesIEAInterPro:IPR0179701600115GO_REF:0000002InterProGO_REF:0000002
Hoxa13Ratprotein binding enablesISOHoxa13 (Mus musculus)1624291PR:Q60954-1 more ...RGDPMID:15617687 and PMID:16087734
Hoxa13RatRNA polymerase II cis-regulatory region sequence-specific DNA binding enablesISOHoxa13 (Mus musculus)1624291 PMID:15342482RGDPMID:15342482
Hoxa13RatRNA polymerase II cis-regulatory region sequence-specific DNA binding enablesIBAMGI:96173 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Hoxa13RatRNA polymerase II cis-regulatory region sequence-specific DNA binding enablesIEAUniProtKB:Q62424 and ensembl:ENSMUSP000001252211600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxa13Ratsequence-specific DNA binding enablesISOHOXA13 (Homo sapiens)1624291 PMID:23332764RGDPMID:23332764
Hoxa13Ratsequence-specific DNA binding enablesIEAUniProtKB:P31271 and ensembl:ENSP000004971121600115GO_REF:0000107EnsemblGO_REF:0000107
Hoxa13Ratsequence-specific double-stranded DNA binding enablesISOHOXA13 (Homo sapiens)1624291 PMID:28473536RGDPMID:28473536
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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. Posterior Hox gene expression and differential androgen regulation in the developing and adult rat prostate lobes. Huang L, etal., Endocrinology. 2007 Mar;148(3):1235-45. Epub 2006 Nov 30.
3. Sonic hedgehog, BMP4, and Hox genes in the development of anorectal malformations in Ethylenethiourea-exposed fetal rats. Mandhan P, etal., J Pediatr Surg. 2006 Dec;41(12):2041-5.
4. Mutation of HOXA13 in hand-foot-genital syndrome. Mortlock DP and Innis JW, Nat Genet. 1997 Feb;15(2):179-80.
5. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Comprehensive gene review and curation RGD comprehensive gene curation
9. Maternal exposure to di-n-butyl phthalate (DBP) induces combined anorectal and urogenital malformations in male rat offspring. Zhu YP, etal., Reprod Toxicol. 2016 Jun;61:169-76. doi: 10.1016/j.reprotox.2016.04.007. Epub 2016 Apr 11.
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PMID:10210434   PMID:12783783   PMID:15342482   PMID:15617687   PMID:15733672   PMID:16314414   PMID:18483557   PMID:19168674   PMID:21829694   PMID:23332764   PMID:27706137  



Hoxa13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8482,689,566 - 82,691,701 (-)NCBIGRCr8
mRatBN7.2481,358,956 - 81,361,091 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl481,358,956 - 81,361,091 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx486,580,795 - 86,582,928 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0482,356,180 - 82,358,313 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0480,783,284 - 80,785,419 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0482,313,383 - 82,315,550 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl482,228,017 - 82,229,397 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04146,980,144 - 146,982,279 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4480,558,841 - 80,561,053NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera476,249,534 - 76,251,232 (-)NCBICelera
Cytogenetic Map4q24NCBI
HOXA13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38727,194,364 - 27,200,091 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl727,193,503 - 27,200,091 (-)EnsemblGRCh38hg38GRCh38
GRCh37727,233,983 - 27,239,710 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36727,203,024 - 27,206,250 (-)NCBINCBI36Build 36hg18NCBI36
Build 34727,009,738 - 27,012,936NCBI
Celera727,225,437 - 27,228,662 (-)NCBICelera
Cytogenetic Map7p15.2NCBI
HuRef727,117,064 - 27,119,882 (-)NCBIHuRef
CHM1_1727,236,223 - 27,239,448 (-)NCBICHM1_1
T2T-CHM13v2.0727,330,371 - 27,336,079 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2727,287,684 - 27,290,909 (-)NCBI
Hoxa13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39652,235,833 - 52,237,865 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl652,234,674 - 52,237,788 (-)EnsemblGRCm39 Ensembl
GRCm38652,258,853 - 52,260,880 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl652,257,694 - 52,260,880 (-)EnsemblGRCm38mm10GRCm38
MGSCv37652,208,852 - 52,210,874 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36652,188,436 - 52,190,458 (-)NCBIMGSCv36mm8
Celera652,780,486 - 52,782,142 (-)NCBICelera
Cytogenetic Map6B3NCBI
cM Map625.41NCBI
Hoxa13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541028,890,171 - 28,893,515 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541028,887,952 - 28,893,515 (-)NCBIChiLan1.0ChiLan1.0
HOXA13
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2632,026,168 - 32,029,267 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1780,346,803 - 80,353,992 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0727,838,656 - 27,844,562 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1727,441,171 - 27,443,793 (-)NCBIpanpan1.1PanPan1.1panPan2
HOXA13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11440,371,234 - 40,375,261 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1440,373,059 - 40,375,980 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1439,801,720 - 39,806,138 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01440,309,583 - 40,314,003 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1440,311,665 - 40,314,704 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11440,423,492 - 40,427,909 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01440,108,556 - 40,112,977 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01440,467,202 - 40,471,624 (-)NCBIUU_Cfam_GSD_1.0
Hoxa13
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511884,612,984 - 84,615,546 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364783,824,715 - 3,827,277 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364783,824,715 - 3,827,277 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HOXA13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1845,373,440 - 45,376,325 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11845,373,340 - 45,379,046 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21850,007,054 - 50,008,334 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HOXA13
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12131,168,239 - 31,175,960 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2131,168,793 - 31,173,056 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604273,559,316 - 73,565,124 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hoxa13
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247393,406,436 - 3,410,851 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247393,405,860 - 3,410,426 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

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Variants in Hoxa13
2 total Variants

Predicted Target Of
Summary Value
Count of predictions:78
Count of miRNA genes:69
Interacting mature miRNAs:70
Transcripts:ENSRNOT00000010441
Prediction methods:Microtar, Miranda, Rnahybrid
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.


1 to 10 of 56 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)438465774146803430Rat
1549843Bw53Body weight QTL 530.0001body mass (VT:0001259)body weight gain (CMO:0000420)461697658103194791Rat
61445Strs3Sensitivity to stroke QTL 33cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)44043338885433388Rat
6893678Bw108Body weight QTL 1082.60.006body mass (VT:0001259)body weight (CMO:0000012)44345797688457976Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)426775591168368347Rat
1357342Bw40Body weight QTL 400.001body mass (VT:0001259)body weight (CMO:0000012)476647384117676292Rat
631556Bp135Blood pressure QTL 1350.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)478881294117676292Rat
1358363Sradr3Stress Responsive Adrenal Weight QTL 36.19adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)457486946102486946Rat
61330Eau1Experimental allergic uveoretinitis QTL 10.0003uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)470362013132642728Rat
70167Bw22Body weight QTL 223.1body mass (VT:0001259)body weight (CMO:0000012)476647384117676292Rat

1 to 10 of 56 rows
Hoxa13  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2481,359,291 - 81,359,494 (+)MAPPERmRatBN7.2
Rnor_6.0482,313,649 - 82,313,851NCBIRnor6.0
Rnor_6.0482,228,125 - 82,228,327NCBIRnor6.0
Rnor_5.04146,894,956 - 146,895,158UniSTSRnor5.0
Rnor_5.04146,980,480 - 146,980,682UniSTSRnor5.0
RGSC_v3.4480,559,177 - 80,559,379UniSTSRGSC3.4
Celera476,249,870 - 76,250,072UniSTS
Cytogenetic Map4q24UniSTS
REN99807  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2481,182,588 - 81,182,820 (+)MAPPERmRatBN7.2
Rnor_6.0482,051,259 - 82,051,490NCBIRnor6.0
Rnor_6.0482,230,363 - 82,230,594NCBIRnor6.0
Rnor_5.04146,897,194 - 146,897,425UniSTSRnor5.0
Rnor_5.04146,718,090 - 146,718,321UniSTSRnor5.0
RGSC_v3.4480,382,483 - 80,382,714UniSTSRGSC3.4
Celera476,074,173 - 76,074,404UniSTS
REN100771  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8482,690,950 - 82,691,176 (+)Marker Load Pipeline
mRatBN7.2481,360,339 - 81,360,566 (+)MAPPERmRatBN7.2
Rnor_6.0482,229,173 - 82,229,399NCBIRnor6.0
Rnor_5.04146,896,004 - 146,896,230UniSTSRnor5.0
Rnor_5.04146,981,528 - 146,981,754UniSTSRnor5.0
RGSC_v3.4480,560,225 - 80,560,451UniSTSRGSC3.4
Celera476,250,918 - 76,251,144UniSTS
Cytogenetic Map4q24UniSTS




alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
12 6 6 21 24 20 8 6 8 6 63 29 9 8 32 12



Ensembl Acc Id: ENSRNOT00000089432   ⟹   ENSRNOP00000073843
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl481,358,956 - 81,361,091 (-)Ensembl
Rnor_6.0 Ensembl482,228,017 - 82,229,397 (-)Ensembl
RefSeq Acc Id: NM_001271355   ⟹   NP_001258284
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8482,689,566 - 82,691,701 (-)NCBI
mRatBN7.2481,358,956 - 81,361,091 (-)NCBI
Rnor_5.04146,980,144 - 146,982,279 (-)NCBI
Celera476,249,534 - 76,251,232 (-)NCBI
Sequence:
Protein RefSeqs NP_001258284 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL88149 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000073843
  ENSRNOP00000073843.2
RefSeq Acc Id: NP_001258284   ⟸   NM_001271355
- UniProtKB: A0A0G2K6K0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000073843   ⟸   ENSRNOT00000089432
Homeobox

Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K5C1-F1-model_v2 AlphaFold A0A0G2K5C1 1-386 view protein structure


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



1 to 23 of 23 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-44808 BioCyc
Ensembl Genes ENSRNOG00000057061 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000089432 ENTREZGENE
  ENSRNOT00000089432.2 UniProtKB/TrEMBL
Gene3D-CATH Homeodomain-like UniProtKB/TrEMBL
InterPro AP_axis_regulatory_Homeobox UniProtKB/TrEMBL
  Homeobox UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
  HoxA13_N UniProtKB/TrEMBL
KEGG Report rno:500129 UniProtKB/TrEMBL
NCBI Gene 500129 ENTREZGENE
PANTHER HOMEOBOX PROTEIN HOX-A13 UniProtKB/TrEMBL
  SEGMENTATION PROTEIN FUSHI TARAZU-LIKE PROTEIN UniProtKB/TrEMBL
Pfam Homeobox UniProtKB/TrEMBL
  HoxA13_N UniProtKB/TrEMBL
PhenoGen Hoxa13 PhenoGen
PROSITE HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000057061 RatGTEx
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain_like UniProtKB/TrEMBL
UniProt A0A0G2K6K0 ENTREZGENE, UniProtKB/TrEMBL
1 to 23 of 23 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Hoxa13  homeo box A13  LOC103692142  homeobox protein Hox-A13  Data merged from RGD:9360896 737654 PROVISIONAL
2015-07-21 Hoxa13  homeo box A13  LOC100910298  homeobox protein Hox-A13-like  Data merged from RGD:6499266 737654 APPROVED
2014-08-25 LOC103692142  homeobox protein Hox-A13      Symbol and Name status set to provisional 70820 PROVISIONAL
2012-07-05 LOC100910298  homeobox protein Hox-A13-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-04-30 Hoxa13  homeo box A13   Hoxa13_predicted  homeo box A13 (predicted)  'predicted' is removed 2292626 APPROVED
2007-02-06 Hoxa13_predicted  homeo box A13 (predicted)  RGD1562483_predicted  similar to transcription factor HOXA13 (predicted)  Symbol and Name updated to reflect Human and Mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1562483_predicted  similar to transcription factor HOXA13 (predicted)  LOC500129  similar to transcription factor HOXA13  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC500129  similar to transcription factor HOXA13      Symbol and Name status set to provisional 70820 PROVISIONAL