Atlas of Genetics and Cytogenetics in Oncology and Haematology


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IK (IK cytokine, down-regulator of HLA II)

Identity

Alias_symbol (synonym)RED
RER
Other aliasCSA2
HGNC (Hugo) IK
LocusID (NCBI) 3550
Atlas_Id 52178
Location 5q31.3  [Link to chromosome band 5q31]
Location_base_pair Starts at 140647799 and ends at 140662480 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
CHRNA9 (4p14) / IK (5q31.3)IK (5q31.3) / RAB11FIP1 (8p11.23)LOC100507412 (-) / IK (5q31.3)

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)IK   5958
Cards
Entrez_Gene (NCBI)IK  3550  IK cytokine, down-regulator of HLA II
AliasesCSA2; RED; RER
GeneCards (Weizmann)IK
Ensembl hg19 (Hinxton)ENSG00000113141 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000113141 [Gene_View]  chr5:140647799-140662480 [Contig_View]  IK [Vega]
ICGC DataPortalENSG00000113141
TCGA cBioPortalIK
AceView (NCBI)IK
Genatlas (Paris)IK
WikiGenes3550
SOURCE (Princeton)IK
Genetics Home Reference (NIH)IK
Genomic and cartography
GoldenPath hg38 (UCSC)IK  -     chr5:140647799-140662480 +  5q31.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)IK  -     5q31.3   [Description]    (hg19-Feb_2009)
EnsemblIK - 5q31.3 [CytoView hg19]  IK - 5q31.3 [CytoView hg38]
Mapping of homologs : NCBIIK [Mapview hg19]  IK [Mapview hg38]
OMIM600549   
Gene and transcription
Genbank (Entrez)AF182645 AJ005579 AK097968 AK225924 AK293626
RefSeq transcript (Entrez)NM_006083
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)IK
Cluster EST : UnigeneHs.421245 [ NCBI ]
CGAP (NCI)Hs.421245
Alternative Splicing GalleryENSG00000113141
Gene ExpressionIK [ NCBI-GEO ]   IK [ EBI - ARRAY_EXPRESS ]   IK [ SEEK ]   IK [ MEM ]
Gene Expression Viewer (FireBrowse)IK [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3550
GTEX Portal (Tissue expression)IK
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ13123   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ13123  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ13123
Splice isoforms : SwissVarQ13123
PhosPhoSitePlusQ13123
Domains : Interpro (EBI)RED_C    RED_N   
Domain families : Pfam (Sanger)RED_C (PF07807)    RED_N (PF07808)   
Domain families : Pfam (NCBI)pfam07807    pfam07808   
Domain structure : Prodom (Prabi Lyon)RED_C (PD311621)   
Conserved Domain (NCBI)IK
DMDM Disease mutations3550
Blocks (Seattle)IK
SuperfamilyQ13123
Human Protein AtlasENSG00000113141
Peptide AtlasQ13123
HPRD02771
IPIIPI00011875   IPI00967665   IPI00966544   IPI00964502   IPI00967365   IPI00883647   
Protein Interaction databases
DIP (DOE-UCLA)Q13123
IntAct (EBI)Q13123
FunCoupENSG00000113141
BioGRIDIK
STRING (EMBL)IK
ZODIACIK
Ontologies - Pathways
QuickGOQ13123
Ontology : AmiGOprotein binding  extracellular space  immune response  cell-cell signaling  nuclear speck  identical protein binding  
Ontology : EGO-EBIprotein binding  extracellular space  immune response  cell-cell signaling  nuclear speck  identical protein binding  
NDEx NetworkIK
Atlas of Cancer Signalling NetworkIK
Wikipedia pathwaysIK
Orthology - Evolution
OrthoDB3550
GeneTree (enSembl)ENSG00000113141
Phylogenetic Trees/Animal Genes : TreeFamIK
HOVERGENQ13123
HOGENOMQ13123
Homologs : HomoloGeneIK
Homology/Alignments : Family Browser (UCSC)IK
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerIK [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)IK
dbVarIK
ClinVarIK
1000_GenomesIK 
Exome Variant ServerIK
ExAC (Exome Aggregation Consortium)IK (select the gene name)
Genetic variants : HAPMAP3550
Genomic Variants (DGV)IK [DGVbeta]
DECIPHERIK [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisIK 
Mutations
ICGC Data PortalIK 
TCGA Data PortalIK 
Broad Tumor PortalIK
OASIS PortalIK [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICIK  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDIK
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 IK
DgiDB (Drug Gene Interaction Database)IK
DoCM (Curated mutations)IK (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)IK (select a term)
intoGenIK
Cancer3DIK(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM600549   
Orphanet
MedgenIK
Genetic Testing Registry IK
NextProtQ13123 [Medical]
TSGene3550
GENETestsIK
Target ValidationIK
Huge Navigator IK [HugePedia]
snp3D : Map Gene to Disease3550
BioCentury BCIQIK
ClinGenIK
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD3550
Chemical/Pharm GKB GenePA29774
Clinical trialIK
Miscellaneous
canSAR (ICR)IK (select the gene name)
Probes
Litterature
PubMed38 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineIK
EVEXIK
GoPubMedIK
iHOPIK
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 18 13:56:12 CEST 2017

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