Sox18 SRY-box transcription factor 18 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sox18provided by RGD
Official Full Name: SRY-box transcription factor 18provided by RGD
Primary source: RGD:1311718
See related: EnsemblRapid:ENSRNOG00000016248 AllianceGenome:RGD:1311718
Gene type: protein coding
RefSeq status: PROVISIONAL
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 transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including establishment of endothelial barrier; regulation of transcription by RNA polymerase II; and vasculature development. Predicted to act upstream of or within several processes, including circulatory system development; regulation of DNA-templated transcription; and stem cell fate specification. Predicted to be located in chromatin. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in hypotrichosis-lymphedema-telangiectasia syndrome and hypotrichosis-lymphedema-telangiectasia-renal defect syndrome. Orthologous to human SOX18 (SRY-box transcription factor 18). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Lung (RPKM 95.0), Heart (RPKM 57.0) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q43

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (189163000..189164802, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (168785488..168787290, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (177177237..177179039, complement)

Chromosome 3 - NC_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

UniSTS:471103 (e-PCR)
- UniSTS:471103

Sox18 (e-PCR), detects polymorphism
- UniSTS:471103

D3Hmgc21 (e-PCR)
- UniSTS:526175

AI385749 (e-PCR)
- UniSTS:165237

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables transcription cis-regulatory region binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in angiogenesis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within angiogenesis	ISO Inferred from Sequence Orthology more info
involved_in angiogenesis	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
acts_upstream_of_or_within blood vessel development	ISO Inferred from Sequence Orthology more info
involved_in blood vessel endothelial cell migration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cell maturation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within embryonic heart tube development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within endocardial cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within endocardium formation	ISO Inferred from Sequence Orthology more info
involved_in establishment of endothelial barrier	ISO Inferred from Sequence Orthology more info
involved_in hair cycle process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within hair follicle development	ISO Inferred from Sequence Orthology more info
NOT acts_upstream_of_or_within heart development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within heart development	ISO Inferred from Sequence Orthology more info
NOT acts_upstream_of_or_within in utero embryonic development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within in utero embryonic development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lymph vessel development	ISO Inferred from Sequence Orthology more info
involved_in lymphangiogenesis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within lymphangiogenesis	ISO Inferred from Sequence Orthology more info
involved_in lymphangiogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lymphatic endothelial cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of stem cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within stem cell fate specification	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within vasculature development	ISO Inferred from Sequence Orthology more info
involved_in vasculogenesis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within vasculogenesis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in chromatin	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of transcription regulator complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: transcription factor SOX-18

Names: SRY (sex determining region Y)-box 18; SRY box 18; SRY-box containing gene 18

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_001024781.1 → NP_001019952.1 transcription factor SOX-18

See identical proteins and their annotated locations for NP_001019952.1

Status: PROVISIONAL

Source sequence(s)

BC097973

UniProtKB/TrEMBL

F7FNP9, Q4V7E4

Related

ENSRNOP00000021790.3, ENSRNOT00000021790.7

Conserved Domains (2) summary

cd01388
Location:78 → 149

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 vertebrates, and ...

pfam12067
Location:191 → 239

Sox17_18_mid; Sox 17/18 central domain