sox19b SRY-box transcription factor 19b [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: sox19bprovided by ZNC
Official Full Name: SRY-box transcription factor 19bprovided by ZNC
Primary source: ZFIN:ZDB-GENE-010111-1
See related: Ensembl:ENSDARG00000040266 AllianceGenome:ZFIN:ZDB-GENE-010111-1
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: cb174; sox31; fb76c08; fe16f11; fe24f11; sb:cb174; id:ibd3529; wu:fb76c08; wu:fe16f11; wu:fe24f11
Summary: Contributes to DNA-binding transcription factor activity. Involved in neural crest cell differentiation and neural tube development. Acts upstream of or within several processes, including dorsal/ventral axis specification; epiboly involved in gastrulation with mouth forming second; and positive regulation of DNA-binding transcription factor activity. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Is expressed in several structures, including central nervous system; neural keel; neural rod; neural tube; and presumptive structure. Orthologous to human SOX15 (SRY-box transcription factor 15). [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 (26494585..26497947, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	7	NC_007118.6 (26223392..26226754, 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?

SOX19b regulates the premature neuronal differentiation of neural stem cells through EZH2-mediated histone methylation in neural tube development of zebrafish.
Title: SOX19b regulates the premature neuronal differentiation of neural stem cells through EZH2-mediated histone methylation in neural tube development of zebrafish.
Sox19b binds to the high nucleosome affinity regions to maintain open chromatin state at zygotic genome activation.
Title: Pou5f3, SoxB1, and Nanog remodel chromatin on high nucleosome affinity regions at zygotic genome activation.
sox31 thus play an essential role for early embryos traversing the transitional stage
Title: Splice blocking of zygotic sox31 leads to developmental arrest shortly after Mid-Blastula Transition and induces apoptosis in zebrafish.
Sox31 functions as an essential CNS AP patterning determinant and coordinates the CNS anterioposterior patterning process with organizer specification
Title: Sox31 is involved in central nervous system anteroposterior regionalization through regulating the organizer activity in zebrafish.
Knockdown of the four B1 sox genes sox2/3/19a/19b resulted in severe developmental abnormalities.
Title: B1 SOX coordinate cell specification with patterning and morphogenesis in the early zebrafish embryo.

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General gene information

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Markers

fe16f11.x1 (e-PCR)
- UniSTS:196254

fe24f11.x1 (e-PCR)
- UniSTS:196318

AI544525 (e-PCR)
- UniSTS:206312

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
contributes_to DNA-binding transcription factor activity	IDA Inferred from Direct Assay more info	PubMed
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in brain development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within chromatin remodeling	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within dorsal/ventral axis specification	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within dorsal/ventral pattern formation	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within epiboly involved in gastrulation with mouth forming second	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in neural crest cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neural tube development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron differentiation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within positive regulation of DNA-binding transcription factor activity	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation 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
part_of transcription regulator complex	IC Inferred by Curator more info	PubMed

General protein information

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Preferred Names: transcription factor Sox-19b

Names: SRY (sex determining region Y)-box 19b; SRY-box containing gene 19b; SRY-box containing gene 31; protein sox-31; transcription factor SOX19B

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_131702.1 → NP_571777.1 transcription factor Sox-19b

See identical proteins and their annotated locations for NP_571777.1

Status: PROVISIONAL

Source sequence(s)

AB242332

UniProtKB/Swiss-Prot

Q2Z1Q8, Q9DDD7

Related

ENSDARP00000058909.5, ENSDART00000058910.6

Conserved Domains (2) summary

cd01388
Location:52 → 123

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:122 → 203

SOXp; SOX transcription factor