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sox2 SRY-box transcription factor 2 [ Danio rerio (zebrafish) ]

Gene ID: 378723, updated on 19-Sep-2021

Summary

Official Symbol
sox2provided by ZNC
Official Full Name
SRY-box transcription factor 2provided by ZNC
Primary source
ZFIN:ZDB-GENE-030909-1
See related
Ensembl:ENSDARG00000070913
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
s; soxp; cb236; zgc:65860; zgc:77389; wu:fb83g04; wu:fc14d07
Orthologs
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Genomic context

See sox2 in Genome Data Viewer
Location:
chromosome: 22
Exon count:
1
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 22 NC_007133.7 (37347893..37349978, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 22 NC_007133.6 (37412975..37415060, complement)
103 previous assembly Zv9 (GCF_000002035.4) 22 NC_007133.5 (40333599..40335684, complement)

Chromosome 22 - NC_007133.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108181229 Neighboring gene SOX2 overlapping transcript Neighboring gene probable phospholipid-transporting ATPase IF Neighboring gene DnaJ (Hsp40) homolog, subfamily C, member 19 Neighboring gene fragile X mental retardation, autosomal homolog 1

Genomic regions, transcripts, and products

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

General gene information

Markers

Homology

Gene Ontology Provided by ZFIN

Process Evidence Code Pubs
involved_in anatomical structure morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within cell population proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within epithalamus development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within eye morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within fin regeneration IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in forebrain development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in inner ear development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within inner ear receptor cell development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within inner ear receptor cell development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within otic placode development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within otic vesicle development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within pineal gland development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within positive regulation of DNA-binding transcription factor activity IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within regeneration IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of transcription, DNA-templated IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within regulation of transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 
part_of transcription regulator complex IC
Inferred by Curator
more info
PubMed 

General protein information

Preferred Names
transcription factor Sox-2
Names
SRY (sex determining region Y)-box 2
SRY-box containing gene 2
transcription factor SOX2

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_213118.1NP_998283.1  transcription factor Sox-2

    See identical proteins and their annotated locations for NP_998283.1

    Status: PROVISIONAL

    Source sequence(s)
    BC065656
    UniProtKB/Swiss-Prot
    Q6P0E1
    Related
    ENSDARP00000095266.3, ENSDART00000104493.5
    Conserved Domains (2) summary
    cd01388
    Location:37108
    SOX-TCF_HMG-box; SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and ...
    pfam12336
    Location:107197
    SOXp; SOX transcription factor

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007133.7 Reference GRCz11 Primary Assembly

    Range
    37347893..37349978 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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