Sox13 SRY (sex determining region Y)-box 13 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Sox13provided by MGI
Official Full Name: SRY (sex determining region Y)-box 13provided by MGI
Primary source: MGI:MGI:98361
See related: Ensembl:ENSMUSG00000070643 AllianceGenome:MGI:98361
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Sox-13
Summary: Enables DNA-binding transcription repressor activity and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Involved in several processes, including gamma-delta T cell differentiation; positive regulation of cell differentiation; and spinal cord oligodendrocyte cell differentiation. Acts upstream of or within regulation of gamma-delta T cell differentiation. Located in cytoplasm and nucleus. Is expressed in several structures, including alimentary system; central nervous system; early conceptus; genitourinary system; and hair follicle. Orthologous to human SOX13 (SRY-box transcription factor 13). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Broad expression in lung adult (RPKM 49.3), small intestine adult (RPKM 36.4) and 24 other tissues See more
Orthologs: human all
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Genomic context

Location:: 1 E4; 1 57.91 cM

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	1	NC_000067.7 (133310038..133352159, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	1	NC_000067.6 (133382300..133424459, complement)

Chromosome 1 - NC_000067.7 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: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

although Sox13 is dispensable for epidermal and adnexal development, Sox13 is a useful marker for early hair follicle development.
Title: Sox13 is a novel early marker for hair follicle development.
This study demonstrated that Sox13 functionally complements the related Sox5 and Sox6 as important developmental modulators in mouse spinal cord oligodendrocytes.
Title: Sox13 functionally complements the related Sox5 and Sox6 as important developmental modulators in mouse spinal cord oligodendrocytes.
Results show that Sox9, Sox5, and Sox13 transcription factors are expressed in postnatal testis and may regulate multiple functions such as steroidogenesis and spermatogenesis.
Title: Expressions of Sox9, Sox5, and Sox13 transcription factors in mice testis during postnatal development.
Data indicate that sox13-mutant CD45.1(+) congenic mice were protected from psoriasis-like skin changes, which identified a role for Sox13-dependent gammadeltaT17 cells in the inflammatory condition.
Title: Deficiency in IL-17-committed Vγ4(+) γδ T cells in a spontaneous Sox13-mutant CD45.1(+) congenic mouse substrain provides protection from dermatitis.
the interaction between Hhex and SOX13 may contribute to control Wnt/TCF1 signaling in the early embryo.
Title: Interaction between Hhex and SOX13 modulates Wnt/TCF activity.
Sox13 identified as a gammadelta-specific gene in the immune system; it promotes gammadelta T cell development while opposing alphabeta T cell differentiation
Title: Regulation of gammadelta versus alphabeta T lymphocyte differentiation by the transcription factor SOX13.
Our data suggest a role for SOX13 in the specification and/or differentiation of a specific subset of neurons in the developing central nervous system.
Title: SOX13 is up-regulated in the developing mouse neuroepithelium and identifies a sub-population of differentiating neurons.
The temporal and spatial expression of SOX13 protein during mouse organogenesis.
Title: SOX13 exhibits a distinct spatial and temporal expression pattern during chondrogenesis, neurogenesis, and limb development.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (1)
Targeted (5) 1 citation

General gene information

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Markers

AW540933 (e-PCR)
- UniSTS:178464

AW259412 (e-PCR)
- UniSTS:178465

Sox13 (e-PCR), detects polymorphism
- UniSTS:471100

RH124649 (e-PCR)
- UniSTS:161471

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription repressor activity	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription repressor activity, RNA polymerase II-specific	ISS Inferred from Sequence or Structural Similarity 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 transcription regulatory region sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables transcription cis-regulatory region binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in cell fate commitment	IBA Inferred from Biological aspect of Ancestor more info
involved_in gamma-delta T cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of canonical Wnt signaling pathway	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
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of brown fat cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of gamma-delta T cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of gamma-delta T cell differentiation	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in spinal cord oligodendrocyte cell differentiation	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: transcription factor SOX-13

Names: SRY-box containing gene 13

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_001420920.1 → NP_001407849.1 transcription factor SOX-13 isoform 1

Status: VALIDATED

Source sequence(s)

AC068906
NM_001420922.1 → NP_001407851.1 transcription factor SOX-13 isoform 2

Status: VALIDATED

Source sequence(s)

AC068906

UniProtKB/Swiss-Prot

Q04891, Q922L3

Related

ENSMUSP00000092130.5, ENSMUST00000094551.5
NM_001420923.1 → NP_001407852.1 transcription factor SOX-13 isoform 2

Status: VALIDATED

Source sequence(s)

AC068906

UniProtKB/Swiss-Prot

Q04891, Q922L3
NM_001420924.1 → NP_001407853.1 transcription factor SOX-13 isoform 3

Status: VALIDATED

Source sequence(s)

AC068906
NM_001420925.1 → NP_001407854.1 transcription factor SOX-13 isoform 3

Status: VALIDATED

Source sequence(s)

AC068906

Related

ENSMUSP00000122980.2, ENSMUST00000144386.8
NM_011439.3 → NP_035569.2 transcription factor SOX-13 isoform 2

See identical proteins and their annotated locations for NP_035569.2

Status: VALIDATED

Source sequence(s)

AC068906

Consensus CDS

CCDS48363.1

UniProtKB/Swiss-Prot

Q04891, Q922L3

UniProtKB/TrEMBL

D3Z7I3

Related

ENSMUSP00000119729.3, ENSMUST00000153799.8

Conserved Domains (1) summary

cd01388
Location:415 → 486

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 ...

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000067.7 Reference GRCm39 C57BL/6J

Range

133310038..133352159 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006529276.5 → XP_006529339.1 transcription factor SOX-13 isoform X3

See identical proteins and their annotated locations for XP_006529339.1

UniProtKB/TrEMBL

D3Z7I3

Conserved Domains (2) summary

cd01388
Location:417 → 488

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 ...

pfam03154
Location:225 → 334

Atrophin-1; Atrophin-1 family
XM_036162973.1 → XP_036018866.1 transcription factor SOX-13 isoform X2

UniProtKB/TrEMBL

D3Z7I3

Conserved Domains (1) summary

cd01388
Location:422 → 493

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 ...
XM_011247945.4 → XP_011246247.1 transcription factor SOX-13 isoform X1

See identical proteins and their annotated locations for XP_011246247.1

UniProtKB/TrEMBL

D3Z7I3

Conserved Domains (2) summary

cd01388
Location:423 → 494

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 ...

pfam03154
Location:231 → 340

Atrophin-1; Atrophin-1 family