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Taking over the Atlas
Dear Colleagues,
The Atlas, once more, is in great danger, and I will have to proceed to a collective economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas). I ask you herein if any Scientific Society (a Society of Cytogenetics, of Clinical Genetics, of Hematology, or a Cancer Society, or any other...), any University and/or Hospital, any Charity, or any database would be interested in taking over the Atlas, in whole or in part. If taking charge of the whole lot is too big, a consortium of various actors could be the solution (I am myself trying to find partners). Could you please spread the information, contact the relevant authorities, and find partners.
Survival of the Atlas will be critically dependant upon your ability to find solutions (and urgently!).
Kind regards.
Jean-Loup Huret
Donations are also welcome

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SRY (sex determining region Y)

Identity

Other namesSRXX1
SRXY1
TDF
TDY
HGNC (Hugo) SRY
LocusID (NCBI) 6736
Location Yp11.31
Location_base_pair Starts at 2654896 and ends at 2655782 bp from pter ( according to hg19-Feb_2009)
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)SRY   11311
Cards
Entrez_Gene (NCBI)SRY  6736  sex determining region Y
GeneCards (Weizmann)SRY
Ensembl hg19 (Hinxton) [Gene_View]  chrY:2654896-2655782 [Contig_View]  SRY [Vega]
Ensembl hg38 (Hinxton) [Gene_View]  chrY:2654896-2655782 [Contig_View]  SRY [Vega]
cBioPortalSRY
AceView (NCBI)SRY
Genatlas (Paris)SRY
WikiGenes6736
SOURCE (Princeton)SRY
Genomic and cartography
GoldenPath hg19 (UCSC)SRY  -     chrY:2654896-2655782 -  Yp11.31   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)SRY  -     Yp11.31   [Description]    (hg38-Dec_2013)
EnsemblSRY - Yp11.31 [CytoView hg19]  SRY - Yp11.31 [CytoView hg38]
Mapping of homologs : NCBISRY [Mapview hg19]  SRY [Mapview hg38]
OMIM400044   400045   480000   
Gene and transcription
Genbank (Entrez)BC074923 BC074924 EU446863 L10101 S53156
RefSeq transcript (Entrez)NM_003140
RefSeq genomic (Entrez)AC_000156 NC_000024 NG_011751 NT_011896 NW_001842422
Consensus coding sequences : CCDS (NCBI)SRY
Cluster EST : UnigeneHs.1992 [ NCBI ]
CGAP (NCI)Hs.1992
Alternative Splicing : Fast-db (Paris)GSHG0033761
Gene ExpressionSRY [ NCBI-GEO ]     SRY [ SEEK ]   SRY [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ05066 (Uniprot)
NextProtQ05066  [Medical]
With graphics : InterProQ05066
Splice isoforms : SwissVarQ05066 (Swissvar)
Domaine pattern : Prosite (Expaxy)HMG_BOX_2 (PS50118)   
Domains : Interpro (EBI)HMG_box_dom    TF_Sry   
Related proteins : CluSTrQ05066
Domain families : Pfam (Sanger)HMG_box (PF00505)   
Domain families : Pfam (NCBI)pfam00505   
Domain families : Smart (EMBL)HMG (SM00398)  
DMDM Disease mutations6736
Blocks (Seattle)Q05066
PDB (SRS)1HRY    1HRZ    1J46    1J47    2GZK   
PDB (PDBSum)1HRY    1HRZ    1J46    1J47    2GZK   
PDB (IMB)1HRY    1HRZ    1J46    1J47    2GZK   
PDB (RSDB)1HRY    1HRZ    1J46    1J47    2GZK   
Peptide AtlasQ05066
HPRD08364
IPIIPI00011568   IPI00956692   IPI01013243   IPI01012788   IPI00385239   IPI00385240   
Protein Interaction databases
DIP (DOE-UCLA)Q05066
IntAct (EBI)Q05066
BioGRIDSRY
IntegromeDBSRY
STRING (EMBL)SRY
Ontologies - Pathways
QuickGOQ05066
Ontology : AmiGODNA binding  RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity  calmodulin binding  nucleus  nucleus  cytoplasm  regulation of transcription from RNA polymerase II promoter  transcription from RNA polymerase II promoter  sex differentiation  transcription factor binding  nuclear speck  cell differentiation  male sex determination  positive regulation of transcription, DNA-templated  positive regulation of male gonad development  
Ontology : EGO-EBIDNA binding  RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity  calmodulin binding  nucleus  nucleus  cytoplasm  regulation of transcription from RNA polymerase II promoter  transcription from RNA polymerase II promoter  sex differentiation  transcription factor binding  nuclear speck  cell differentiation  male sex determination  positive regulation of transcription, DNA-templated  positive regulation of male gonad development  
Protein Interaction DatabaseSRY
DoCM (Curated mutations)SRY
Wikipedia pathwaysSRY
Gene fusion - rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerSRY [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SRY
dbVarSRY
ClinVarSRY
1000_GenomesSRY 
Exome Variant ServerSRY
SNP (GeneSNP Utah)SRY
SNP : HGBaseSRY
Genetic variants : HAPMAPSRY
Genomic Variants (DGV)SRY [DGVbeta]
Mutations
Somatic Mutations in Cancer : COSMICSRY 
CONAN: Copy Number AnalysisSRY 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)Y:2654896-2655782
Mutations and Diseases : HGMDSRY
OMIM400044    400045    480000   
MedgenSRY
NextProtQ05066 [Medical]
GENETestsSRY
Disease Genetic AssociationSRY
Huge Navigator SRY [HugePedia]  SRY [HugeCancerGEM]
snp3D : Map Gene to Disease6736
DGIdb (Drug Gene Interaction db)SRY
General knowledge
Homologs : HomoloGeneSRY
Homology/Alignments : Family Browser (UCSC)SRY
Phylogenetic Trees/Animal Genes : TreeFamSRY
Chemical/Protein Interactions : CTD6736
Chemical/Pharm GKB GenePA36135
Clinical trialSRY
Other databases
Probes
Litterature
PubMed156 Pubmed reference(s) in Entrez
CoreMineSRY
GoPubMedSRY
iHOPSRY
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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Contributor(s)

Written09-2002Dessen P, Le Minor S
Updated12-2014Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sat Feb 14 18:50:36 CET 2015

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