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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 78174414 and ends at 78183941 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
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]  chr14:78174414-78183941 [Contig_View]  SLIRP [Vega]
Ensembl hg38 (Hinxton)ENSG00000119705 [Gene_View]  chr14:78174414-78183941 [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 hg19 (UCSC)SLIRP  -     chr14:78174414-78183941 +  14q24.3   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)SLIRP  -     14q24.3   [Description]    (hg38-Dec_2013)
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)NC_000014 NC_018925 NT_026437 NW_004929393
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]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)81892
GTEX Portal (Tissue expression)SLIRP
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   
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 AtlasENSG00000119705
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 : AmiGOnucleotide binding  negative regulation of mitochondrial RNA catabolic process  acrosomal vesicle  protein binding  nucleus  mitochondrion  transcription, DNA-templated  regulation of transcription, DNA-templated  spermatid development  single fertilization  sperm motility  ribonucleoprotein complex  sperm flagellum  poly(A) RNA binding  perinuclear region of cytoplasm  mitochondrion morphogenesis  
Ontology : EGO-EBInucleotide binding  negative regulation of mitochondrial RNA catabolic process  acrosomal vesicle  protein binding  nucleus  mitochondrion  transcription, DNA-templated  regulation of transcription, DNA-templated  spermatid development  single fertilization  sperm motility  ribonucleoprotein complex  sperm flagellum  poly(A) RNA binding  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
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)SLIRP (select the gene name)
Genetic variants : HAPMAP81892
Genomic Variants (DGV)SLIRP [DGVbeta]
DECIPHER (Syndromes)14:78174414-78183941  ENSG00000119705
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 Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM610211   
Orphanet
MedgenSLIRP
Genetic Testing Registry SLIRP
NextProtQ9GZT3 [Medical]
TSGene81892
GENETestsSLIRP
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
PubMed28 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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indexed on : Tue Mar 14 12:44:01 CET 2017

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