SOX21 Gene protein-coding GIFtS : 50 GCID: GC13 M095361
SRY (Sex Determining Region Y)-Box 21
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Aliasesfor SOX21 gene
(According to
1 HGNC ,
2 Entrez Gene ,
3 UniProtKB/Swiss-Prot ,
4 UniProtKB/TrEMBL , 5 OMIM , 6 GeneLoc ,
7 Ensembl ,
8 DME ,
9 miRBase ,
10 fRNAdb ,
12 H-InvDB ,
13 NCBI ,
14 NONCODE ,
and/or 15 RNAdb )About This Section Aliases SRY (Sex Determining Region Y)-Box 21 1 2 SRY-Box 211 2 SOX-A2 3 SOX252 3 Transcription Factor SOX-212 SOXA3
Export aliases for SOX21 gene to outside databases Previous GC identifers: GC13M093723 GC13M089750 GC13M094200 GC13M093061 GC13M094159 GC13M075959
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Summariesfor SOX21 gene (According to Entrez Gene ,
Tocris Bioscience ,
Wikipedia's
Gene Wiki ,
PharmGKB ,UniProtKB/Swiss-Prot ,
and/or
UniProtKB/TrEMBL )
About This Section 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 (highmobility 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 theHMG domain. For additional background information on SOX genes, see SOX1 (MIM 602148).(supplied by OMIM, Apr2004) GeneCards Summary for SOX21 Gene: SOX21 (SRY (sex determining region Y)-box 21) is a protein-coding gene. Diseases associated with SOX21 include lambert-eaton myasthenic syndrome campomelic dysplasia related super-pathways are Rho Family GTPases . GO annotations related to this gene include sequence-specific DNA binding RNA polymerase II transcription factor activity and sequence-specific DNA binding transcription factor activity . An important paralog of this gene is SOX13 . UniProtKB/Swiss-Prot: SOX21_HUMAN, Q9Y651 Function : May play a role as an activator of transcription of OPRM1 (By similarity)Gene Wiki entry for SOX21 Gene
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Genomic Viewsfor SOX21 gene
(According to
GeneLoc and/or
HGNC , and/or
Entrez Gene (NCBI build 37) ,miRBase ,UCSC (hg19) and
Ensembl (release 73) ,
Regulatory elements and Epigenetics data according to
QIAGEN ,
SABiosciences , and/or
SwitchGear Genomics )About This Section RefSeq DNA sequence: NC_000013.10 NC_018924.2 NT_009952.14 Regulatory elements: SABiosciences Regulatory transcription factor binding sites in the SOX21 gene promoter:Sox5 Sp1 COMP1 Chx10 IRF-7A CUTL1 POU6F1 (c2) Egr-4 Other transcription factors Search SABiosciences Chromatin IP Primers for SOX21 Epigenetics: QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human mouse rat
Genomic Location: Genomic View : UCSC Golden Path with GeneCards custom track Entrez Gene cytogenetic band: 13q31-q32 Ensembl cytogenetic band: 13q32.1 HGNC cytogenetic band: 13q31-q32 SOX21 Gene in genomic location: bands according to Ensembl, locations according to
Entrez Gene Ensembl GeneLoc information about chromosome 13 GeneLoc Exon Structure
GeneLoc location for GC13M095361: view genomic region
(about GC identifiers )
Start: 95,361,876 bp from pter End:
95,364,389 bp from pter
Size: 2,514 bases Orientation:
minus strand
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Proteinsfor SOX21 gene
(According to
UniProtKB ,
HORDE ,
neXtProt ,
Ensembl ,
and/or Reactome ,
Modification sites according to PhosphoSitePlus ,
Specific Peptides from DME ,
Protein expression images according to data from SPIRE 1 MOPED ,
2 PaxDb , and 3 MAXQB
RefSeq according to NCBI ,
PDB rendering according to OCA and/or Proteopedia ,
Recombinant Proteins
from
EMD Millipore ,
R&D Systems ,
GenScript ,
Enzo Life Sciences ,
OriGene ,
Novus Biologicals ,
Sino Biological ,
ProSpec , and/or
Cloud-Clone Corp. ,
EMD Millipore ,
R&D Systems ,
OriGene ,
GenScript ,
Cell Signaling Technology ,
Enzo Life Sciences , and/or
Cloud-Clone Corp. ,
Ontologies according to Gene
Ontology Consortium 01 Oct 2013 and
Entrez Gene ,
Antibodies by
EMD Millipore ,
R&D Systems ,
GenScript ,
Cell Signaling Technology ,
OriGene ,
Novus Biologicals ,
Thermo Fisher Scientific ,
LSBio ,
Abcam , and/or
Cloud-Clone Corp. )
About This Section UniProtKB/Swiss-Prot: SOX21_HUMAN, Q9Y651 See
protein sequence )Recommended Name: Size : 276 amino acids; 28580 DaSubcellular location : Nucleus (By similarity)Secondary accessions : P35715 Q15504 Q5TBS1Explore the universe of human proteins at neXtProt for SOX21: NX_Q9Y651 Explore proteomics data for SOX21 at MOPED Post-translational modifications:
View modification sites using PhosphoSitePlus View neXtProt modification sites for NX_Q9Y651 SOX21 Protein expression data from MOPED1 2 3 : About this image REFSEQ proteins: NP_009015.1 ENSEMBL proteins: ENSP00000366144 Human Recombinant Protein Products for SOX21: Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view) : About this table
About GeneDecksing SOX21 Antibody Products: Assay Products for SOX21:
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Protein
Domains /for SOX21 gene (According to HGNC , IUPHAR , InterPro , ProtoNet ,
UniProtKB , and/or BLOCKS ,
Sets of similar genes according to GeneDecks )
About This Section HGNC Gene Families: SOX: SRY (sex determining region Y)-boxes 2 InterPro protein domains :
Graphical View of Domain Structure for InterPro Entry Q9Y651 ProtoNet protein and cluster: Q9Y651
UniProtKB/Swiss-Prot: SOX21_HUMAN, Q9Y651 Similarity : Contains 1 HMG box DNA-binding domainAbout GeneDecksing
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Functionfor SOX21 gene
(According to 1 UniProtKB ,
Genatlas ,
LifeMap Discovery™ ,
IUBMB , and/or
2 DME ,
Human phenotypes from GenomeRNAi ,
Animal models from MGI Mar 06 2013,
inGenious Targeting Laboratory ,
genOway ,
SABiosciences ,
miRNA Gene Targets from miRTarBase ,
shRNA from
OriGene ,
RNAi from
EMD Millipore ,
siRNAs from
OriGene ,
QIAGEN ,
microRNA from QIAGEN ,
Gene Editing from DNA2.0 ,
Sirion Biotech ,
Clones from EMD Millipore ,
OriGene ,
SwitchGear Genomics ,
GenScript ,
Sino Biological ,
DNA2.0 ,
Vector BioLabs ,
and Sirion Biotech ,
Cell Lines from GenScript ,
LifeMap BioReagents ,
In Situ Hybridization Assays from Advanced Cell Diagnostics ,
Ontologies according to Gene Ontology Consortium 01 Oct 2013 via
Entrez Gene .)
About This Section Molecular Function: UniProtKB/Swiss-Prot Summary: SOX21_HUMAN, Q9Y651 Function : May play a role as an activator of transcription of OPRM1 (By similarity)
Genatlas biochemistry entry for SOX21 SRY related HMG box gene 221,involved in embryonic CNS development,modulator of LINE retroposons promoter activity Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view) : About this table
GO ID Qualified GO term Evidence PubMed IDs GO:0000981 sequence-specific DNA binding RNA polymerase II transcription factor activity
NAS 10441749 GO:0003677 DNA binding
ISS -- GO:0003700 sequence-specific DNA binding transcription factor activity
ISS --
About GeneDecksing Phenotypes: 2 MGI mutant phenotypes (inferred from 1 allele(MGI details for Sox21) :About GeneDecksing Animal Models: Cell Line GenScript Custom overexpressing Cell Line Services for SOX21 Search LifeMap BioReagents cell lines for SOX21 In Situ AssayAdvanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SOX21
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Pathways & Interactionsfor SOX21 gene
(Pathways according to
EMD Millipore ,
R&D Systems ,
Cell Signaling Technology ,
KEGG ,
PharmGKB ,
BioSystems ,
Sino Biological ,
Reactome ,
Tocris Bioscience ,
GeneGo (Thomson Reuters) ,
QIAGEN ,
and/or UniProtKB ,
Sets of similar genes according to GeneDecks ,
Interaction Networks according to
SABiosciences ,
and/or STRING ,
Interactions according to 1 UniProtKB ,
2 MINT ,
3 I2D , and/or
4 STRING ,
with links to IntAct and
Ensembl ,
Ontologies according to Gene Ontology Consortium 01 Oct 2013 via
Entrez Gene) .
About This Section SuperPaths for SOX21 About See pathways by source SuperPath Contained pathways About 1 Rho Family GTPases
1 Interactions: Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SOX21 Gene Ontology (GO): 5/7 biological process terms (GO ID links to tree view) (see all 7 ): About this table
About GeneDecksing
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Drugs & Compoundsfor SOX21 gene (Chemical Compounds according to UniProtKB , Enzo Life Sciences ,
EMD Millipore , Tocris Bioscience
HMDB ,
BitterDB , and/or
Novoseek ,
Ligands according to IUPHAR ,
and Drugs according to DrugBank ,
Enzo Life Sciences , and/or
PharmGKB , with drugs/clinical trials/news
search links to CenterWatch )
About This Section Browse Tocris compounds for SOX21 SOX21
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Transcriptsfor SOX21 gene (Secondary structures according to
fRNAdb ,Unigene
(Build 236 Homo sapiens; Apr 25 2013) or GenBank , Entrez Gene ,
DOTS (version 10), and/or
AceView ,
transcript ids from Ensembl
with links to UCSC , KenesGroup ,
exon structure from GeneLoc ,
alternative splicing isoforms according to ASD and/or
ECgene ,EMD Millipore ,
OriGene ,
QIAGEN ,
shRNA from
OriGene ,
microRNA from QIAGEN ,
OriGene ,
SwitchGear Genomics ,
GenScript ,
DNA2.0 ,
Vector BioLabs ,
Sirion Biotech ,
Primers from
OriGene ,
SABiosciences , and/or
QIAGEN
)About This Section REFSEQ mRNAs for SOX21 gene: NM_007084.2 Unigene Cluster for SOX21:
SRY (sex determining region Y)-box 21 Hs.187577 [show with all ESTs ] Unigene Representative Sequence: NM_007084 1 Ensembl transcript including schematic representation, and UCSC links where relevant : ENST00000376945 (uc001vma.3 ) Primer human mouse SABiosciences RT2 qPCR Primer Assay in human mouse rat QIAGEN QuantiTect SYBR Green Assays in human mouse rat QIAGEN QuantiFast Probe-based Assays in human mouse rat
Additional mRNA sequence: X65666.1 X71136.1
1 DOTS entry : DT.40299601
12 AceView cDNA sequences :
AI201812 NM_007084 BM783159 AI816765 X65666 AI884987 X71136 AI418194 AI569726 BF940869 AI869218 AA040785 GeneLoc Exon Structure
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Expression for SOX21 gene
(RNA expression data according to
H-InvDB ,
NONCODE ,
miRBase , and
RNAdb ,
Expression images according to data from
BioGPS ,
Illumina Human BodyMap , and
CGAP
SAGE ,
Sets of similar genes according to GeneDecks ,
in vivo and in vitro expression data from LifeMap Discovery™ ,
plus additional links to
Genevestigator , and/or
SOURCE , and/or
BioGPS , and/or
UniProtKB ,SABiosciences ,
Primers from
OriGene ,
SABiosciences , and/or
QIAGEN ,
In Situ Hybridization Assays from Advanced Cell Diagnostics )
About This Section SOX21 expression in normal human tissues
(normalized intensities) SOX21 embryonic expression: see See probesets specificity/sensitivity at GeneAnnot About this image BioGPS 2/3 CGAP TAG: TATTTAGTTTAbout this image
SOX21 expression in embryonic tissues and stem cells About this table LifeMap ,
the Embryonic Development and Stem Cells Database 5/8 selected tissues (see all 8 ) fully expand See SOX21 Protein Expression from SPIRE MOPED and PaxDB Genevestigator expression for SOX21 SOURCE GeneReport for Unigene cluster: Hs.187577 SABiosciences Custom PCR Arrays for SOX21 Primer human mouse SABiosciences RT2 qPCR Primer Assay in human mouse rat QIAGEN QuantiTect SYBR Green Assays in human mouse rat QIAGEN QuantiFast Probe-based Assays in human mouse rat In Situ Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SOX21
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Orthologsfor SOX21 gene
(Orthologs according to
1,2 HomoloGene (2 older version, for species not in 1 newer version),
3 euGenes ,
4 SGD
,
5 MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase ,
and/or
6 Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam )
About This Section Orthologs for SOX21 gene from 5/10 species (see all 10 ) About this table
Organism
Taxonomic
Gene
Description
Human
Orthology
Details
mouse Mammalia Sox211 5
SRY-box containing gene 211, 5
93.36(n) 1 99.64(a) 1
14 (61.92 cM) 5 223227 1 NM_177753.3 1 NP_808421.1 1 118233232 5
lizard Reptilia SOX216
Uncharacterized protein
75(a)
1 ↔ 1
3(84855418-84856257)
zebrafish Actinopterygii sox21b1
SRY-box containing gene 21 b
73.2(n) 84.9(a)
406246 NM_001009888.2 NP_001009888.1
fruit fly Insecta Sox21a3
transcription factor
91(a)
70D2 --
worm Secernentea sox-46
Protein SOX-4
22(a)
1 → many
X(3505440-3506391)
ENSEMBL Gene Tree for SOX21 (if available)TreeFam Gene Tree for SOX21 (if available)
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Paralogsfor SOX21 gene (Paralogs according to
1 HomoloGene ,2 Ensembl , and 3 SIMAP , Pseudogenes according to 4 Pseudogene.org Build 68)About This Section Paralogs for SOX21 gene SOX13 2 SOX2 2 SOX4 2 SOX1 2 SOX14 2 SOX3 2 SOX9 2 SOX12 2 SOX15 2 SOX18 2 SOX5 2 ENSG00000258724 2 SOX17 2 SOX6 2 SOX11 2 SOX8 2 SRY 2 SOX10 2 SOX7 2 10 SIMAP similar genes for SOX21 using alignment to 1 protein entry: SOX21_HUMAN :soxB SRY SOX17 SOX15 SOX14 SOX11 SOX10 SOX3 SOX1 SOX2 About GeneDecksing
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Genomic Variantsfor SOX21 gene (SNPs/Variants according to the
1 NCBI SNP Database ,
2 Ensembl ,
3 PupaSUITE ,
4 UniProtKB , and
DNA2.0 ,
Linkage Disequilibrium by HapMap ,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants , Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB) , Blood group antigen gene mutations by BGMUT ,
Resequencing Primers from QIAGEN ,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences )
About This Section Genomic Data Transcription Related Data Allele Frequencies SNP ID Valid Clinical Chr 13 pos Sequence # AA Type More # Allele Pop Total More
HapMap Linkage Disequilibrium report for SOX21 (95361876 - 95364389 bp)
Structural Variations Database of Genomic Variants (DGV) 4 variations for SOX21 : About this table SABiosciences Cancer Mutation PCR Assays
SeqTarget long-range PCR primers for resequencing SOX21
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Disorders
/ Diseasesfor SOX21 gene
(in which this Gene is Involved, According to MalaCards ,
OMIM, UniProtKB ,
the University of Copenhagen DISEASES
database , Conferences by KenesGroup ,
Genatlas , GeneTests ,
GAD ,
HuGE Navigator ,
and/or TGDB .)
About This Section OMIM gene information: 604974
OMIM disorders : --7 : About MalaCards lambert-eaton myasthenic syndrome campomelic dysplasia hypopituitarism lung cancer melanoma gastric cancer neuronitis About GeneDecksing Export disorders for SOX21 gene to outside databases
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Publicationsfor SOX21 gene (in
PubMed .
Associations of this gene to articles via
1 Entrez Gene ,
2 UniProtKB/Swiss-Prot ,
3 HGNC ,
4 GAD ,
5 PharmGKB ,
6 HMDB ,
7 DrugBank ,
8 UniProtKB/TrEMBL ,
9 Novoseek , and/or
10 fRNAdb )
About This Section PubMed articles for SOX21 gene, integrated from 9 sources (see all 16 ):(articles sorted by number of sources associating them with SOX21) Utopia : connect your pdf to the dynamic
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. (PubMed id 10441749) 1 , 2 , 3(1999) A conserved family of genes related to the testis determining gene, SRY. (PubMed id 1614875) 1 , 2 (1992) Sox21 inhibits glioma progression in vivo by forming c omplexes with Sox2 and stimulating aberrant differentiation. (PubMed id 23463365) 1 (2013) Forced expression of Sox21 inhibits Sox2 and induces apoptosis in human glioma cells. (PubMed id 20824710) 1 (2011) Transcriptome analysis of human gastric cancer. (PubMed id 16341674) 1 (2005) The DNA sequence and analysis of human chromosome 13. (PubMed id 15057823) 2 (2004) Twenty pairs of sox: extent, homology, and nomenclature of the mouse and human sox transcription factor gene families. (PubMed id 12194848) 1 (2002) Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932) 1 (2002) DNA cloning using in vitro site-specific recombination. (PubMed id 11076863) 1 (2000) Further complexity of the human SOX gene family revealed by the combined use of highly degenerate primers and nested PCR. (PubMed id 9827568) 1 (1998)
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External Searches for SOX21 gene
(in PubMed ,
OMIM , and NCBI Bookshelf ) About This Section
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Genome Databases showing SOX21 gene
(According to
Entrez Gene ,
HGNC ,
AceView ,
euGenes ,
Ensembl ,
miRBase ,
ECgene ,
Kegg ,
and/or
H-InvDB )
About This Section
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Other Databases showing SOX21 gene
(According to HUGE )
About This Section --
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Specialized Databases showing SOX21 gene (According to PharmGKB ,
ATLAS , HORDE , IMGT , LEIDEN , UniProtKB/Swiss-Prot , and/or UniProtKB/TrEMBL ,Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot )About This Section
Name Description PharmGKB entry for SOX21 Pharmacogenomics, SNPs, Pathways
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About This Section Patent Information for SOX21 gene: SOX21 GeneCards and IP: Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
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Productsfor SOX21 gene (Antibodies, recombinant proteins, and assays from EMD Millipore , R&D Systems , OriGene , QIAGEN , GenScript , Cell Signaling Technology , SABiosciences , Novus Biologicals , Sino Biological , Enzo Life Sciences , Abcam , ProSpec , Cloud-Clone Corp. , Thermo Fisher Scientific , LSBio , Gene Editing from DNA2.0 and Sirion Biotech , Clones from EMD Millipore , OriGene , GenScript , Sino Biological , DNA2.0 , SwitchGear Genomics , Vector BioLabs , Sirion Biotech , Cell lines from GenScript , and LifeMap BioReagents , PCR Arrays from SABiosciences , Drugs and/or compounds from EMD Millipore , Tocris Bioscience , and/or
Enzo Life Sciences , In Situ Hybridization Assays from Advanced Cell Diagnostics , Animal models from inGenious Targeting Laboratory ,
genOway )About This Section
QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat SOX21 QIAGEN SeqTarget long-range PCR primers for resequencing SOX21 QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human mouse rat QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human mouse rat QIAGEN QuantiFast Probe-based Assays in human mouse rat QIAGEN QuantiTect SYBR Green Assays in human mouse rat
Search Tocris compounds for SOX21
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SOX21
Search ThermoFisher Antibodies for SOX21
Vector BioLabs ready-to-use adenovirus/AAV for human , mouse , rat SOX21
LSBio Antibodies in human mouse rat
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Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014
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transforming growth factor, beta 1
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