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SOX21 Gene(Protein Coding)

SRY-Box 21

GCID:
GC13M094709
GIFtS:
44
Genes Participants
UDN Logo

Aliases for SOX21 Gene

Aliases for SOX21 Gene

  • SRY-Box 21 2 3 5
  • SRY (Sex Determining Region Y)-Box 21 2 3
  • SOX-A 3 4
  • SOX25 3 4
  • Transcription Factor SOX-21 3
  • SRY Box 21 2
  • SOXA 4

External Ids for SOX21 Gene

Previous GeneCards Identifiers for SOX21 Gene

  • GC13M093723
  • GC13M089750
  • GC13M094200
  • GC13M093061
  • GC13M094159
  • GC13M095361
  • GC13M075959

Summaries for SOX21 Gene

Entrez Gene Summary for SOX21 Gene

  • SRY-related HMG-box (SOX) genes encode a family of DNA-binding proteins containing a 79-amino acid HMG (high mobility group) domain that shares at least 50% sequence identity with the DNA-binding HMG box of the SRY protein (MIM 480000). SOX proteins are divided into 6 subgroups based on sequence similarity within and outside of the HMG domain. For additional background information on SOX genes, see SOX1 (MIM 602148).[supplied by OMIM, Apr 2004]

GeneCards Summary for SOX21 Gene

SOX21 (SRY-Box 21) is a Protein Coding gene. Among its related pathways are Mesodermal Commitment Pathway and ERK Signaling. Gene Ontology (GO) annotations related to this gene include DNA binding transcription factor activity and RNA polymerase II transcription factor activity, sequence-specific DNA binding. An important paralog of this gene is SOX14.

UniProtKB/Swiss-Prot for SOX21 Gene

  • May play a role as an activator of transcription of OPRM1.

Gene Wiki entry for SOX21 Gene

Additional gene information for SOX21 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SOX21 Gene

Genomics for SOX21 Gene

Products:

  1. Regulatory Element

GeneHancer (GH) Regulatory Elements for SOX21 Gene

Promoters and enhancers for SOX21 Gene
GeneHancer (GH) Identifier GH Type GH
Score		 GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites		 Gene Targets
GH13I094710 Enhancer 0.9 ENCODE dbSUPER 550.8 +1.4 1427 2.1 ZSCAN5A CTCF MXI1 ZNF792 ARNT SUZ12 SIN3A GLI4 ZNF2 ZNF335 GC13M094711 SOX21 SOX21-AS1 TGDS LOC101927248
GH13I094712 Enhancer 0.7 ENCODE 550.8 -0.6 -574 1.6 RING1 ZSCAN4 ZNF335 ZFHX2 GLIS2 POLR2A PATZ1 ZNF547 PRDM10 ZBTB20 GC13M094711 SOX21 SOX21-AS1 GPR180 BRD7P5
GH13I094322 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 1.3 +384.4 384397 10.9 PKNOX1 ZFP64 BATF RAD21 RARA YY1 ETV6 FOS BCLAF1 RUNX3 SOX21 GC13P094348 GC13P094200
GH13I094705 Enhancer 1.7 VISTA UCNEbase ENCODE dbSUPER 0.8 +4.9 4850 3.9 RING1 MAX BACH1 CTBP1 POLR2A ZNF366 SCRT2 ATF7 EZH2 SCRT1 GC13M094696 LOC101927248 SOX21
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SOX21 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SOX21 gene promoter:

Genomic Locations for SOX21 Gene

Genomic Locations for SOX21 Gene
chr13:94,709,622-94,712,543
(GRCh38/hg38)
Size:
2,922 bases
Orientation:
Minus strand
chr13:95,361,876-95,364,389
(GRCh37/hg19)

Genomic View for SOX21 Gene

Genes around SOX21 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SOX21 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SOX21 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for SOX21 Gene

Proteins for SOX21 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for SOX21 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y651-SOX21_HUMAN
    Recommended name:
    Transcription factor SOX-21
    Protein Accession:
    Q9Y651
    Secondary Accessions:
    • P35715
    • Q15504
    • Q5TBS1

    Protein attributes for SOX21 Gene

    Size:
    276 amino acids
    Molecular mass:
    28580 Da
    Quaternary structure:
    No Data Available

neXtProt entry for SOX21 Gene

Protein Expression for SOX21 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for SOX21 Gene

No Post-translational modifications

Other Protein References for SOX21 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SOX21 Gene

Domains & Families for SOX21 Gene

Gene Families for SOX21 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Transcription factors

Protein Domains for SOX21 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SOX21 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SOX21: view

No data available for UniProtKB/Swiss-Prot for SOX21 Gene

Function for SOX21 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Molecular function for SOX21 Gene

GENATLAS Biochemistry:
SRY related HMG box gene 221,involved in embryonic CNS development,modulator of LINE retroposons promoter activity
UniProtKB/Swiss-Prot Function:
May play a role as an activator of transcription of OPRM1.

Phenotypes From GWAS Catalog for SOX21 Gene

Gene Ontology (GO) - Molecular Function for SOX21 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000978 RNA polymerase II proximal promoter sequence-specific DNA binding IEA --
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding NAS 10441749
GO:0001077 transcriptional activator activity, RNA polymerase II proximal promoter sequence-specific DNA binding IEA --
GO:0003677 DNA binding ISS --
GO:0003700 DNA binding transcription factor activity IEA,ISS --
genes like me logo Genes that share ontologies with SOX21: view
genes like me logo Genes that share phenotypes with SOX21: view

Animal Models for SOX21 Gene

MGI Knock Outs for SOX21:

Animal Model Products

miRNA for SOX21 Gene

miRTarBase miRNAs that target SOX21

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SOX21 Gene

Localization for SOX21 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SOX21 Gene

Nucleus.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SOX21 gene
Compartment Confidence
nucleus 5
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleus (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SOX21 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005575 cellular_component ND --
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with SOX21: view

Pathways & Interactions for SOX21 Gene

genes like me logo Genes that share pathways with SOX21: view

Pathways by source for SOX21 Gene

2 BioSystems pathways for SOX21 Gene
1 Qiagen pathway for SOX21 Gene

Interacting Proteins for SOX21 Gene

STRING Interaction Network Preview (showing 3 interactants - click image to see details)
http://version10.5.string-db.org/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000366144%0d%0a9606.ENSP00000323588%0d%0a9606.ENSP00000259915%0d%0a9606.ENSP00000229307%0d%0a
Selected Interacting proteins: Q9Y651-SOX21_HUMAN ENSP00000366144 for SOX21 Gene via IID STRING

Gene Ontology (GO) - Biological Process for SOX21 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001942 hair follicle development IEA --
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated ISS --
GO:0006357 regulation of transcription by RNA polymerase II NAS 10441749
GO:0006366 transcription by RNA polymerase II IEA --
genes like me logo Genes that share ontologies with SOX21: view

No data available for SIGNOR curated interactions for SOX21 Gene

Drugs & Compounds for SOX21 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for SOX21 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for SOX21 Gene

(1) REFSEQ mRNAs :
(2) Additional mRNA sequences :
(12) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for SOX21 Gene

SRY (sex determining region Y)-box 21:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SOX21 Gene

No ASD Table

Relevant External Links for SOX21 Gene

GeneLoc Exon Structure for
SOX21
ECgene alternative splicing isoforms for
SOX21

Expression for SOX21 Gene

Products:

  1. Primer

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SOX21 Gene

mRNA expression in normal human tissues for SOX21 Gene
mRNA expression by GTEx for SOX21 GenemRNA expression by BioGPS for SOX21 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SOX21 Gene

This gene is overexpressed in Skin - Sun Exposed (Lower leg) (x5.6), Skin - Not Sun Exposed (Suprapubic) (x5.4), Brain - Amygdala (x4.4), Esophagus - Mucosa (x4.2), and Brain - Caudate (basal ganglia) (x4.1).

Protein differential expression in normal tissues from HIPED for SOX21 Gene

This gene is overexpressed in Fetal gut (36.1), Fetal Brain (18.9), and Tlymphocyte (13.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SOX21 Gene



Protein tissue co-expression partners for SOX21 Gene

NURSA nuclear receptor signaling pathways regulating expression of SOX21 Gene:

SOX21

SOURCE GeneReport for Unigene cluster for SOX21 Gene:

Hs.187577

Evidence on tissue expression from TISSUES for SOX21 Gene

  • Nervous system(4.3)
genes like me logo Genes that share expression patterns with SOX21: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SOX21 Gene

Orthologs for SOX21 Gene

This gene was present in the common ancestor of animals.

Orthologs for SOX21 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
 Mammalia SOX21 34
  • 99 (a)
 OneToOne
oppossum
(Monodelphis domestica)
 Mammalia SOX21 34
  • 97 (a)
 OneToOne
rat
(Rattus norvegicus)
 Mammalia Sox21 33
  • 95.93 (n)
mouse
(Mus musculus)
 Mammalia Sox21 33 16 34
  • 93.36 (n)
lizard
(Anolis carolinensis)
 Reptilia SOX21 34
  • 75 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia sox21 33
  • 74.03 (n)
zebrafish
(Danio rerio)
 Actinopterygii sox21b 33 34
  • 71.33 (n)
sox21a 34
  • 60 (a)
 ManyToMany
rainbow trout
(Oncorhynchus mykiss)
 Actinopterygii Omy.3288 33
fruit fly
(Drosophila melanogaster)
 Insecta Sox21a 35 34
  • 91 (a)
Sox21b 35
  • 91 (a)
D 35
  • 87 (a)
African malaria mosquito
(Anopheles gambiae)
 Insecta AgaP_AGAP010922 33
  • 77.54 (n)
worm
(Caenorhabditis elegans)
 Secernentea sox-3 34
  • 42 (a)
 OneToMany
sea squirt
(Ciona savignyi)
 Ascidiacea -- 34
  • 35 (a)
 OneToMany
Species where no ortholog for SOX21 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • chimpanzee (Pan troglodytes)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • dog (Canis familiaris)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SOX21 Gene

ENSEMBL:
Gene Tree for SOX21 (if available)
TreeFam:
Gene Tree for SOX21 (if available)

Paralogs for SOX21 Gene

Paralogs for SOX21 Gene

(10) SIMAP similar genes for SOX21 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with SOX21: view

Variants for SOX21 Gene

Sequence variations from dbSNP and Humsavar for SOX21 Gene

SNP ID Clin Chr 13 pos Variation AA Info Type
rs1001172925 -- 94,709,719(-) G/A 3_prime_UTR_variant
rs1001332378 -- 94,712,227(-) C/T 5_prime_UTR_variant
rs1001614977 -- 94,712,491(-) C/T 5_prime_UTR_variant
rs1002336160 -- 94,709,955(-) A/G 3_prime_UTR_variant
rs1002997508 -- 94,713,509(-) G/C upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for SOX21 Gene

Variant ID Type Subtype PubMed ID
dgv3325n54 CNV loss 21841781
dgv3326n54 CNV loss 21841781
esv28079 CNV loss 19812545
esv34004 CNV loss 18971310
nsv1070605 CNV deletion 25765185
nsv562766 CNV loss 21841781
nsv826750 CNV gain 20364138
nsv832686 CNV gain 17160897

Variation tolerance for SOX21 Gene

Gene Damage Index Score: 0.32; 7.18% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SOX21 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SOX21

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SOX21 Gene

Disorders for SOX21 Gene

Additional Disease Information for SOX21

ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for SOX21 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SOX21 Gene

Publications for SOX21 Gene

  1. The isolation and high-resolution chromosomal mapping of human SOX14 and SOX21; two members of the SOX gene family related to SOX1, SOX2, and SOX3. (PMID: 10441749) Malas S … Episkopou V (Mammalian genome : official journal of the International Mammalian Genome Society 1999) 2 3 4 58
  2. A conserved family of genes related to the testis determining gene, SRY. (PMID: 1614875) Denny P … Ashworth A (Nucleic acids research 1992) 3 4 58
  3. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  4. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin EL … Gygi SP (Cell 2015) 3 58
  5. The variant Polycomb Repressor Complex 1 component PCGF1 interacts with a pluripotency sub-network that includes DPPA4, a regulator of embryogenesis. (PMID: 26687479) Oliviero G … Cagney G (Scientific reports 2015) 3 58

Products for SOX21 Gene

Sources for SOX21 Gene

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