sox17 SRY-box transcription factor 17 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: sox17provided by ZNC
Official Full Name: SRY-box transcription factor 17provided by ZNC
Primary source: ZFIN:ZDB-GENE-991213-1
See related: Ensembl:ENSDARG00000101717 AllianceGenome:ZFIN:ZDB-GENE-991213-1
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Summary: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within Kupffer's vesicle development; determination of left/right symmetry; and primitive hemopoiesis. Predicted to be active in nucleus. Is expressed in several structures, including Kupffer's vesicle; endoderm; lateral plate mesoderm; liver and biliary system; and presumptive structure. Human ortholog(s) of this gene implicated in intracranial aneurysm; patent ductus arteriosus; and vesicoureteral reflux. Orthologous to human SOX17 (SRY-box transcription factor 17). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 7

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	7	NC_007118.7 (58773148..58776152, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	7	NC_007118.6 (58470718..58473722, complement)

Chromosome 7 - NC_007118.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Targeted knockdown of Sox17 and Chd in dorsal forerunner cells led to aberrant Left-Right (L-R) asymmetry establishment, as visualized by the expression of southpaw and lefty, and heart and pancreas placement in the embryo.
Title: Sox17 and chordin are required for formation of Kupffer's vesicle and left-right asymmetry determination in zebrafish.
Results describe sox17 cis-regulatory elements, and examine the specific input predictions of the gene regulatory networks.
Title: Functional analysis of the evolutionarily conserved cis-regulatory elements on the sox17 gene in zebrafish.
knockout of dusp4 revealed a specific loss of sox17, establishing a new class of endoderm specification defect
Title: Transcriptional profiling of endogenous germ layer precursor cells identifies dusp4 as an essential gene in zebrafish endoderm specification.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within Kupffer's vesicle development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in angiogenesis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within determination of heart left/right asymmetry	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within determination of pancreatic left/right asymmetry	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in endoderm formation	IBA Inferred from Biological aspect of Ancestor more info
involved_in heart development	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of canonical Wnt signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within primitive hemopoiesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in vasculogenesis	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: transcription factor SOX-17

Names: SRY (sex determining region Y)-box 17; SRY-box containing gene 17

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)

NM_131287.3 → NP_571362.2 transcription factor SOX-17

See identical proteins and their annotated locations for NP_571362.2

Status: VALIDATED

Source sequence(s)

CU681855

UniProtKB/TrEMBL

A0A8M1PB34, Q5PQZ5

Related

ENSDARP00000135455.1, ENSDART00000167433.3

Conserved Domains (2) summary

cd01388
Location:62 → 133

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 ...

pfam12067
Location:186 → 411

Sox_C_TAD; Sox C-terminal transactivation domain