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CRNKL1 (crooked neck pre-mRNA splicing factor 1)

Identity

Alias_namescrooked neck (Drosophila Crn homolog)-like 1
Crn, crooked neck-like 1 (Drosophila)
crooked neck pre-mRNA splicing factor-like 1 (Drosophila)
Alias_symbol (synonym)CRN
CLF
SYF3
Clf1
Other aliasHCRN
MSTP021
HGNC (Hugo) CRNKL1
LocusID (NCBI) 51340
Atlas_Id 54239
Location 20p11.23  [Link to chromosome band 20p11]
Location_base_pair Starts at 20034361 and ends at 20056046 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)
RHOBTB3 (5q15) / CRNKL1 (20p11.23)

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

 


Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  t(5;20)(q15;p11) RHOBTB3/CRNKL1


External links

Nomenclature
HGNC (Hugo)CRNKL1   15762
Cards
Entrez_Gene (NCBI)CRNKL1  51340  crooked neck pre-mRNA splicing factor 1
AliasesCLF; CRN; Clf1; HCRN; 
MSTP021; SYF3
GeneCards (Weizmann)CRNKL1
Ensembl hg19 (Hinxton)ENSG00000101343 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000101343 [Gene_View]  ENSG00000101343 [Sequence]  chr20:20034361-20056046 [Contig_View]  CRNKL1 [Vega]
ICGC DataPortalENSG00000101343
TCGA cBioPortalCRNKL1
AceView (NCBI)CRNKL1
Genatlas (Paris)CRNKL1
WikiGenes51340
SOURCE (Princeton)CRNKL1
Genetics Home Reference (NIH)CRNKL1
Genomic and cartography
GoldenPath hg38 (UCSC)CRNKL1  -     chr20:20034361-20056046 -  20p11.23   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CRNKL1  -     20p11.23   [Description]    (hg19-Feb_2009)
EnsemblCRNKL1 - 20p11.23 [CytoView hg19]  CRNKL1 - 20p11.23 [CytoView hg38]
Mapping of homologs : NCBICRNKL1 [Mapview hg19]  CRNKL1 [Mapview hg38]
OMIM610952   
Gene and transcription
Genbank (Entrez)AA255987 AB016840 AF111802 AF255443 AF318302
RefSeq transcript (Entrez)NM_001278625 NM_001278626 NM_001278627 NM_001278628 NM_016652
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)CRNKL1
Cluster EST : UnigeneHs.171342 [ NCBI ]
CGAP (NCI)Hs.171342
Alternative Splicing GalleryENSG00000101343
Gene ExpressionCRNKL1 [ NCBI-GEO ]   CRNKL1 [ EBI - ARRAY_EXPRESS ]   CRNKL1 [ SEEK ]   CRNKL1 [ MEM ]
Gene Expression Viewer (FireBrowse)CRNKL1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)51340
GTEX Portal (Tissue expression)CRNKL1
Human Protein AtlasENSG00000101343-CRNKL1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9BZJ0   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9BZJ0  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9BZJ0
Splice isoforms : SwissVarQ9BZJ0
PhosPhoSitePlusQ9BZJ0
Domains : Interpro (EBI)HAT    TPR-contain_dom    TPR-like_helical_dom_sf   
Domain families : Pfam (Sanger)HAT (PF02184)   
Domain families : Pfam (NCBI)pfam02184   
Domain families : Smart (EMBL)HAT (SM00386)  
Conserved Domain (NCBI)CRNKL1
DMDM Disease mutations51340
Blocks (Seattle)CRNKL1
PDB (SRS)5MQF    5XJC   
PDB (PDBSum)5MQF    5XJC   
PDB (IMB)5MQF    5XJC   
PDB (RSDB)5MQF    5XJC   
Structural Biology KnowledgeBase5MQF    5XJC   
SCOP (Structural Classification of Proteins)5MQF    5XJC   
CATH (Classification of proteins structures)5MQF    5XJC   
SuperfamilyQ9BZJ0
Human Protein Atlas [tissue]ENSG00000101343-CRNKL1 [tissue]
Peptide AtlasQ9BZJ0
HPRD09898
IPIIPI00177437   IPI01011870   IPI00219318   IPI00219320   IPI00219317   IPI00939360   
Protein Interaction databases
DIP (DOE-UCLA)Q9BZJ0
IntAct (EBI)Q9BZJ0
FunCoupENSG00000101343
BioGRIDCRNKL1
STRING (EMBL)CRNKL1
ZODIACCRNKL1
Ontologies - Pathways
QuickGOQ9BZJ0
Ontology : AmiGOspliceosomal complex assembly  spliceosomal complex assembly  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  Prp19 complex  RNA binding  RNA binding  protein binding  nucleus  nucleoplasm  spliceosomal complex  nuclear speck  U2-type catalytic step 2 spliceosome  catalytic step 2 spliceosome  catalytic step 2 spliceosome  post-mRNA release spliceosomal complex  
Ontology : EGO-EBIspliceosomal complex assembly  spliceosomal complex assembly  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  Prp19 complex  RNA binding  RNA binding  protein binding  nucleus  nucleoplasm  spliceosomal complex  nuclear speck  U2-type catalytic step 2 spliceosome  catalytic step 2 spliceosome  catalytic step 2 spliceosome  post-mRNA release spliceosomal complex  
Pathways : KEGGSpliceosome   
NDEx NetworkCRNKL1
Atlas of Cancer Signalling NetworkCRNKL1
Wikipedia pathwaysCRNKL1
Orthology - Evolution
OrthoDB51340
GeneTree (enSembl)ENSG00000101343
Phylogenetic Trees/Animal Genes : TreeFamCRNKL1
HOVERGENQ9BZJ0
HOGENOMQ9BZJ0
Homologs : HomoloGeneCRNKL1
Homology/Alignments : Family Browser (UCSC)CRNKL1
Gene fusions - Rearrangements
Fusion : MitelmanRHOBTB3/CRNKL1 [5q15/20p11.23]  [t(5;20)(q15;p11)]  
Fusion : QuiverCRNKL1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCRNKL1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CRNKL1
dbVarCRNKL1
ClinVarCRNKL1
1000_GenomesCRNKL1 
Exome Variant ServerCRNKL1
ExAC (Exome Aggregation Consortium)ENSG00000101343
GNOMAD BrowserENSG00000101343
Varsome BrowserCRNKL1
Genetic variants : HAPMAP51340
Genomic Variants (DGV)CRNKL1 [DGVbeta]
DECIPHERCRNKL1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCRNKL1 
Mutations
ICGC Data PortalCRNKL1 
TCGA Data PortalCRNKL1 
Broad Tumor PortalCRNKL1
OASIS PortalCRNKL1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCRNKL1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCRNKL1
intOGen PortalCRNKL1
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 CRNKL1
DgiDB (Drug Gene Interaction Database)CRNKL1
DoCM (Curated mutations)CRNKL1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CRNKL1 (select a term)
intoGenCRNKL1
Cancer3DCRNKL1(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM610952   
Orphanet
DisGeNETCRNKL1
MedgenCRNKL1
Genetic Testing Registry CRNKL1
NextProtQ9BZJ0 [Medical]
TSGene51340
GENETestsCRNKL1
Target ValidationCRNKL1
Huge Navigator CRNKL1 [HugePedia]
snp3D : Map Gene to Disease51340
BioCentury BCIQCRNKL1
ClinGenCRNKL1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD51340
Chemical/Pharm GKB GenePA26886
Clinical trialCRNKL1
Miscellaneous
canSAR (ICR)CRNKL1 (select the gene name)
Probes
Litterature
PubMed34 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCRNKL1
EVEXCRNKL1
GoPubMedCRNKL1
iHOPCRNKL1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Nov 6 11:00:17 CET 2018

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