Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

SOX13 (SRY (sex determining region Y)-box 13)

Identity

Alias_namesSRY (sex determining region Y)-box 13
SRY box 13
Alias_symbol (synonym)Sox-13
ICA12
MGC117216
Other alias
HGNC (Hugo) SOX13
LocusID (NCBI) 9580
Atlas_Id 74080
Location 1q32.1  [Link to chromosome band 1q32]
Location_base_pair Starts at 204042246 and ends at 204096871 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
NFASC (1q32.1) / SOX13 (1q32.1)SOX13 (1q32.1) / CACNA1C (12p13.33)SOX13 (1q32.1) / MERTK (2q13)
SOX13 (1q32.1) / SOX13 (1q32.1)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)SOX13   11192
Cards
Entrez_Gene (NCBI)SOX13  9580  SRY (sex determining region Y)-box 13
AliasesICA12; Sox-13
GeneCards (Weizmann)SOX13
Ensembl hg19 (Hinxton)ENSG00000143842 [Gene_View]  chr1:204042246-204096871 [Contig_View]  SOX13 [Vega]
Ensembl hg38 (Hinxton)ENSG00000143842 [Gene_View]  chr1:204042246-204096871 [Contig_View]  SOX13 [Vega]
ICGC DataPortalENSG00000143842
TCGA cBioPortalSOX13
AceView (NCBI)SOX13
Genatlas (Paris)SOX13
WikiGenes9580
SOURCE (Princeton)SOX13
Genetics Home Reference (NIH)SOX13
Genomic and cartography
GoldenPath hg19 (UCSC)SOX13  -     chr1:204042246-204096871 +  1q32.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)SOX13  -     1q32.1   [Description]    (hg38-Dec_2013)
EnsemblSOX13 - 1q32.1 [CytoView hg19]  SOX13 - 1q32.1 [CytoView hg38]
Mapping of homologs : NCBISOX13 [Mapview hg19]  SOX13 [Mapview hg38]
OMIM604748   
Gene and transcription
Genbank (Entrez)AF083105 AF098915 AF116571 AK301782 AK304192
RefSeq transcript (Entrez)NM_005686
RefSeq genomic (Entrez)NC_000001 NC_018912 NT_004487 NW_004929293
Consensus coding sequences : CCDS (NCBI)SOX13
Cluster EST : UnigeneHs.201671 [ NCBI ]
CGAP (NCI)Hs.201671
Alternative Splicing GalleryENSG00000143842
Gene ExpressionSOX13 [ NCBI-GEO ]   SOX13 [ EBI - ARRAY_EXPRESS ]   SOX13 [ SEEK ]   SOX13 [ MEM ]
Gene Expression Viewer (FireBrowse)SOX13 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)9580
GTEX Portal (Tissue expression)SOX13
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9UN79   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9UN79  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9UN79
Splice isoforms : SwissVarQ9UN79
PhosPhoSitePlusQ9UN79
Domaine pattern : Prosite (Expaxy)HMG_BOX_2 (PS50118)   
Domains : Interpro (EBI)HMG_box_dom    SOX-13   
Domain families : Pfam (Sanger)HMG_box (PF00505)   
Domain families : Pfam (NCBI)pfam00505   
Domain families : Smart (EMBL)HMG (SM00398)  
Conserved Domain (NCBI)SOX13
DMDM Disease mutations9580
Blocks (Seattle)SOX13
SuperfamilyQ9UN79
Human Protein AtlasENSG00000143842
Peptide AtlasQ9UN79
IPIIPI00219551   IPI00514043   IPI00979351   IPI00979258   IPI00977249   
Protein Interaction databases
DIP (DOE-UCLA)Q9UN79
IntAct (EBI)Q9UN79
FunCoupENSG00000143842
BioGRIDSOX13
STRING (EMBL)SOX13
ZODIACSOX13
Ontologies - Pathways
QuickGOQ9UN79
Ontology : AmiGOsequence-specific DNA binding transcription factor activity  protein binding  nucleus  nucleus  nucleoplasm  nucleoplasm  transcription, DNA-templated  regulation of transcription, DNA-templated  anatomical structure morphogenesis  sequence-specific DNA binding  regulation of gamma-delta T cell differentiation  
Ontology : EGO-EBIsequence-specific DNA binding transcription factor activity  protein binding  nucleus  nucleus  nucleoplasm  nucleoplasm  transcription, DNA-templated  regulation of transcription, DNA-templated  anatomical structure morphogenesis  sequence-specific DNA binding  regulation of gamma-delta T cell differentiation  
NDEx NetworkSOX13
Atlas of Cancer Signalling NetworkSOX13
Wikipedia pathwaysSOX13
Orthology - Evolution
OrthoDB9580
GeneTree (enSembl)ENSG00000143842
Phylogenetic Trees/Animal Genes : TreeFamSOX13
HOVERGENQ9UN79
HOGENOMQ9UN79
Homologs : HomoloGeneSOX13
Homology/Alignments : Family Browser (UCSC)SOX13
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSOX13 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SOX13
dbVarSOX13
ClinVarSOX13
1000_GenomesSOX13 
Exome Variant ServerSOX13
ExAC (Exome Aggregation Consortium)SOX13 (select the gene name)
Genetic variants : HAPMAP9580
Genomic Variants (DGV)SOX13 [DGVbeta]
DECIPHER (Syndromes)1:204042246-204096871  ENSG00000143842
CONAN: Copy Number AnalysisSOX13 
Mutations
ICGC Data PortalSOX13 
TCGA Data PortalSOX13 
Broad Tumor PortalSOX13
OASIS PortalSOX13 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSOX13  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSOX13
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch SOX13
DgiDB (Drug Gene Interaction Database)SOX13
DoCM (Curated mutations)SOX13 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SOX13 (select a term)
intoGenSOX13
Cancer3DSOX13(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM604748   
Orphanet
MedgenSOX13
Genetic Testing Registry SOX13
NextProtQ9UN79 [Medical]
TSGene9580
GENETestsSOX13
Huge Navigator SOX13 [HugePedia]
snp3D : Map Gene to Disease9580
BioCentury BCIQSOX13
ClinGenSOX13
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD9580
Chemical/Pharm GKB GenePA36029
Clinical trialSOX13
Miscellaneous
canSAR (ICR)SOX13 (select the gene name)
Probes
Litterature
PubMed21 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSOX13
EVEXSOX13
GoPubMedSOX13
iHOPSOX13
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Tue Mar 14 12:46:11 CET 2017

Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.