Vax1 (ventral anterior homeobox 1) - Rat Genome Database

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Gene: Vax1 (ventral anterior homeobox 1) Heterocephalus glaber
Analyze
Symbol: Vax1
Name: ventral anterior homeobox 1
RGD ID: 18924081
Description: ENCODES a protein that exhibits chromatin DNA binding (ortholog); DNA-binding transcription factor activity (ortholog); DNA-binding transcription repressor activity, RNA polymerase II-specific (ortholog); INVOLVED IN astrocyte differentiation (ortholog); axon guidance (ortholog); brain development (ortholog); ASSOCIATED WITH microphthalmia (ortholog); syndromic microphthalmia 11 (ortholog); FOUND IN nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473729,490,936 - 29,496,483 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473729,489,601 - 29,496,548 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleus  (IEA)

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Vax1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473729,490,936 - 29,496,483 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473729,489,601 - 29,496,548 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
VAX1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3810117,128,520 - 117,138,270 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl10117,128,521 - 117,138,301 (-)EnsemblGRCh38hg38GRCh38
GRCh3710118,888,031 - 118,897,781 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3610118,878,022 - 118,887,802 (-)NCBINCBI36Build 36hg18NCBI36
Celera10112,617,376 - 112,627,160 (-)NCBICelera
Cytogenetic Map10q25.3NCBI
HuRef10112,516,187 - 112,526,080 (-)NCBIHuRef
CHM1_110119,172,341 - 119,182,118 (-)NCBICHM1_1
T2T-CHM13v2.010118,023,007 - 118,032,756 (-)NCBIT2T-CHM13v2.0
Vax1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391959,152,912 - 59,158,829 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1959,154,619 - 59,158,488 (-)EnsemblGRCm39 Ensembl
GRCm381959,164,480 - 59,170,397 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1959,166,187 - 59,170,056 (-)EnsemblGRCm38mm10GRCm38
MGSCv371959,240,677 - 59,244,519 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361959,219,437 - 59,223,279 (-)NCBIMGSCv36mm8
Celera1961,364,938 - 61,368,428 (-)NCBICelera
Cytogenetic Map19D3NCBI
cM Map1954.61NCBI
Vax1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81268,310,644 - 268,326,713 (-)NCBIGRCr8
mRatBN7.21258,324,571 - 258,342,396 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1258,326,276 - 258,330,192 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1266,532,877 - 266,536,799 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01273,238,899 - 273,242,819 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01265,880,448 - 265,884,366 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01280,334,897 - 280,338,813 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1280,334,897 - 280,338,813 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01287,695,646 - 287,699,562 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41265,699,404 - 265,703,320 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11265,910,448 - 265,914,365 (-)NCBI
Celera1253,980,379 - 253,984,299 (-)NCBICelera
Cytogenetic Map1q55NCBI
Vax1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543121,853,636 - 21,857,547 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543121,853,636 - 21,857,547 (-)NCBIChiLan1.0ChiLan1.0
VAX1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v28129,000,474 - 129,007,775 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan110129,007,153 - 129,013,113 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v010113,710,934 - 113,720,671 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.110117,139,483 - 117,148,979 (-)NCBIpanpan1.1PanPan1.1panPan2
VAX1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12827,624,699 - 27,628,736 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2827,623,971 - 27,628,717 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2827,768,175 - 27,772,234 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02828,154,409 - 28,158,468 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2828,153,678 - 28,158,468 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12827,715,574 - 27,719,628 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02827,729,062 - 27,733,114 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02827,923,619 - 27,927,682 (-)NCBIUU_Cfam_GSD_1.0
Vax1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721318,581,259 - 18,586,636 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364866,974,662 - 6,978,542 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364866,972,972 - 6,978,544 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VAX1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl14127,271,566 - 127,275,744 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.114127,269,723 - 127,277,007 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214138,568,540 - 138,574,416 (-)NCBISscrofa10.2Sscrofa10.2susScr3
VAX1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.19109,925,282 - 109,935,003 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl9109,930,708 - 109,934,763 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604871,182,204 - 71,191,902 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_004838850 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AHKG01015142 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSHGLT00000017493   ⟹   ENSHGLP00000017320
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462473729,490,936 - 29,496,483 (+)Ensembl
RefSeq Acc Id: XM_004838850   ⟹   XP_004838907
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462473729,489,601 - 29,496,548 (+)NCBI
Protein Sequences
Protein RefSeqs XP_004838907 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000017320
RefSeq Acc Id: XP_004838907   ⟸   XM_004838850
- UniProtKB: A0AAX6NX29 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000017320   ⟸   ENSHGLT00000017493


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000012395 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000017493 ENTREZGENE
Gene3D-CATH Homeodomain-like UniProtKB/TrEMBL
InterPro EMX-VAX-Noto_Homeobox_TFs UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeodomain-like_sf UniProtKB/TrEMBL
  HTH_motif UniProtKB/TrEMBL
  IPR001356 UniProtKB/TrEMBL
NCBI Gene Vax1 ENTREZGENE
PANTHER HOMEOBOX PROTEIN EMX-RELATED UniProtKB/TrEMBL
  VENTRAL ANTERIOR HOMEOBOX 1 UniProtKB/TrEMBL
Pfam Homeodomain UniProtKB/TrEMBL
PRINTS HTHREPRESSR UniProtKB/TrEMBL
PROSITE HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain-like UniProtKB/TrEMBL
UniProt A0AAX6NX29 ENTREZGENE, UniProtKB/TrEMBL