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Vax2 ventral anterior homeobox 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 64572, updated on 17-Aug-2024

Summary

Official Symbol
Vax2provided by RGD
Official Full Name
ventral anterior homeobox 2provided by RGD
Primary source
RGD:621133
See related
EnsemblRapid:ENSRNOG00000013261 AllianceGenome:RGD:621133
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable DNA binding activity and DNA-binding transcription repressor activity, RNA polymerase II-specific. Predicted to be involved in forebrain development; neuron differentiation; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including dorsal/ventral axis specification; eye development; and negative regulation of transcription by RNA polymerase II. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Orthologous to human VAX2 (ventral anterior homeobox 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Brain (RPKM 2.2), Liver (RPKM 2.2) and 9 other tissues See more
Orthologs
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Genomic context

See Vax2 in Genome Data Viewer
Location:
4q34
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (117753180..117777242)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (116195528..116219597)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (115388839..115412515)

Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene Glyceraldehyde-3-phosphate dehydrogenase, pseudogene 70 Neighboring gene ventral anterior homeobox 2 like Neighboring gene uncharacterized LOC108350721 Neighboring gene ATPase H+ transporting V1 subunit B1 Neighboring gene ankyrin repeat domain 53

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

General gene information

Markers

Gene Ontology Provided by RGD

Process Evidence Code Pubs
involved_in Wnt signaling pathway IEA
Inferred from Electronic Annotation
more info
 
involved_in axonogenesis IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within axonogenesis ISO
Inferred from Sequence Orthology
more info
 
involved_in brain development IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within camera-type eye development ISO
Inferred from Sequence Orthology
more info
 
involved_in central nervous system development IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in dorsal/ventral axis specification IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within dorsal/ventral axis specification ISO
Inferred from Sequence Orthology
more info
 
involved_in embryonic eye morphogenesis IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within embryonic eye morphogenesis ISO
Inferred from Sequence Orthology
more info
 
involved_in forebrain development IEA
Inferred from Electronic Annotation
more info
 
involved_in forebrain development ISO
Inferred from Sequence Orthology
more info
 
involved_in forebrain development ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in neuron differentiation IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in retina development in camera-type eye IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within retina development in camera-type eye ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
ventral anterior homeobox 2
Names
ventral anterior homeobox containing gene 2

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_022637.3NP_072159.2  ventral anterior homeobox 2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000004
    UniProtKB/Swiss-Prot
    Q9JLZ9
    UniProtKB/TrEMBL
    A6IAP0, G3V7R0
    Related
    ENSRNOP00000018128.1, ENSRNOT00000018128.4

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086022.1 Reference GRCr8

    Range
    117753180..117777242
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039108321.2XP_038964249.1  ventral anterior homeobox 2 isoform X1

    Conserved Domains (1) summary
    pfam00046
    Location:241
    Homeobox; Homeobox domain