Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SLIRP (SRA stem-loop interacting RNA binding protein)

Identity

Alias_namesC14orf156
chromosome 14 open reading frame 156
Alias_symbol (synonym)DC50
Other aliasPD04872
HGNC (Hugo) SLIRP
LocusID (NCBI) 81892
Atlas_Id 73516
Location 14q24.3  [Link to chromosome band 14q24]
Location_base_pair Starts at 77708071 and ends at 77717601 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
CEP128 (14q31.1) / SLIRP (14q24.3)SLIRP (14q24.3) / EXD2 (14q24.1)SLIRP (14q24.3) / NGLY1 (3p24.2)
SLIRP (14q24.3) / RAP2C (Xq26.2)SLIRP (14q24.3) / SEC14L1 (17q25.2)

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)SLIRP   20495
Cards
Entrez_Gene (NCBI)SLIRP  81892  SRA stem-loop interacting RNA binding protein
AliasesC14orf156; DC50; PD04872
GeneCards (Weizmann)SLIRP
Ensembl hg19 (Hinxton)ENSG00000119705 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000119705 [Gene_View]  chr14:77708071-77717601 [Contig_View]  SLIRP [Vega]
ICGC DataPortalENSG00000119705
TCGA cBioPortalSLIRP
AceView (NCBI)SLIRP
Genatlas (Paris)SLIRP
WikiGenes81892
SOURCE (Princeton)SLIRP
Genetics Home Reference (NIH)SLIRP
Genomic and cartography
GoldenPath hg38 (UCSC)SLIRP  -     chr14:77708071-77717601 +  14q24.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SLIRP  -     14q24.3   [Description]    (hg19-Feb_2009)
EnsemblSLIRP - 14q24.3 [CytoView hg19]  SLIRP - 14q24.3 [CytoView hg38]
Mapping of homologs : NCBISLIRP [Mapview hg19]  SLIRP [Mapview hg38]
OMIM610211   
Gene and transcription
Genbank (Entrez)AF253980 AF271779 AJ272055 AY860853 BC017895
RefSeq transcript (Entrez)NM_001267863 NM_001267864 NM_031210
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SLIRP
Cluster EST : UnigeneHs.655105 [ NCBI ]
CGAP (NCI)Hs.655105
Alternative Splicing GalleryENSG00000119705
Gene ExpressionSLIRP [ NCBI-GEO ]   SLIRP [ EBI - ARRAY_EXPRESS ]   SLIRP [ SEEK ]   SLIRP [ MEM ]
Gene Expression Viewer (FireBrowse)SLIRP [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)81892
GTEX Portal (Tissue expression)SLIRP
Human Protein AtlasENSG00000119705-SLIRP [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9GZT3   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9GZT3  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9GZT3
Splice isoforms : SwissVarQ9GZT3
PhosPhoSitePlusQ9GZT3
Domaine pattern : Prosite (Expaxy)RRM (PS50102)   
Domains : Interpro (EBI)Nucleotide-bd_a/b_plait    RRM_dom    SLIRP_RRM   
Domain families : Pfam (Sanger)RRM_1 (PF00076)   
Domain families : Pfam (NCBI)pfam00076   
Domain families : Smart (EMBL)RRM (SM00360)  
Conserved Domain (NCBI)SLIRP
DMDM Disease mutations81892
Blocks (Seattle)SLIRP
SuperfamilyQ9GZT3
Human Protein Atlas [tissue]ENSG00000119705-SLIRP [tissue]
Peptide AtlasQ9GZT3
HPRD12639
IPIIPI00009922   IPI01025199   IPI01025364   IPI01024994   IPI01024987   IPI01024921   IPI01026429   IPI01026545   IPI01026195   
Protein Interaction databases
DIP (DOE-UCLA)Q9GZT3
IntAct (EBI)Q9GZT3
FunCoupENSG00000119705
BioGRIDSLIRP
STRING (EMBL)SLIRP
ZODIACSLIRP
Ontologies - Pathways
QuickGOQ9GZT3
Ontology : AmiGOnegative regulation of mitochondrial RNA catabolic process  acrosomal vesicle  RNA binding  protein binding  nucleus  mitochondrion  transcription, DNA-templated  regulation of transcription, DNA-templated  spermatid development  single fertilization  flagellated sperm motility  intracellular ribonucleoprotein complex  sperm flagellum  perinuclear region of cytoplasm  mitochondrion morphogenesis  
Ontology : EGO-EBInegative regulation of mitochondrial RNA catabolic process  acrosomal vesicle  RNA binding  protein binding  nucleus  mitochondrion  transcription, DNA-templated  regulation of transcription, DNA-templated  spermatid development  single fertilization  flagellated sperm motility  intracellular ribonucleoprotein complex  sperm flagellum  perinuclear region of cytoplasm  mitochondrion morphogenesis  
NDEx NetworkSLIRP
Atlas of Cancer Signalling NetworkSLIRP
Wikipedia pathwaysSLIRP
Orthology - Evolution
OrthoDB81892
GeneTree (enSembl)ENSG00000119705
Phylogenetic Trees/Animal Genes : TreeFamSLIRP
HOVERGENQ9GZT3
HOGENOMQ9GZT3
Homologs : HomoloGeneSLIRP
Homology/Alignments : Family Browser (UCSC)SLIRP
Gene fusions - Rearrangements
Fusion: Tumor Portal SLIRP
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSLIRP [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SLIRP
dbVarSLIRP
ClinVarSLIRP
1000_GenomesSLIRP 
Exome Variant ServerSLIRP
ExAC (Exome Aggregation Consortium)ENSG00000119705
GNOMAD BrowserENSG00000119705
Genetic variants : HAPMAP81892
Genomic Variants (DGV)SLIRP [DGVbeta]
DECIPHERSLIRP [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSLIRP 
Mutations
ICGC Data PortalSLIRP 
TCGA Data PortalSLIRP 
Broad Tumor PortalSLIRP
OASIS PortalSLIRP [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSLIRP  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSLIRP
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 SLIRP
DgiDB (Drug Gene Interaction Database)SLIRP
DoCM (Curated mutations)SLIRP (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SLIRP (select a term)
intoGenSLIRP
Cancer3DSLIRP(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck I.stitUte!: MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM610211   
Orphanet
MedgenSLIRP
Genetic Testing Registry SLIRP
NextProtQ9GZT3 [Medical]
TSGene81892
GENETestsSLIRP
Target ValidationSLIRP
Huge Navigator SLIRP [HugePedia]
snp3D : Map Gene to Disease81892
BioCentury BCIQSLIRP
ClinGenSLIRP
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD81892
Chemical/Pharm GKB GenePA134892132
Clinical trialSLIRP
Miscellaneous
canSAR (ICR)SLIRP (select the gene name)
Probes
Litterature
PubMed32 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSLIRP
EVEXSLIRP
GoPubMedSLIRP
iHOPSLIRP
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Thu Nov 9 12:27:54 CET 2017

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