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IK IK cytokine [ Homo sapiens (human) ]

Gene ID: 3550, updated on 4-Nov-2018

Summary

Official Symbol
IKprovided by HGNC
Official Full Name
IK cytokineprovided by HGNC
Primary source
HGNC:HGNC:5958
See related
Ensembl:ENSG00000113141 MIM:600549; Vega:OTTHUMG00000163374
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
RED; RER; CSA2
Summary
The protein encoded by this gene was identified by its RED repeat, a stretch of repeated arginine, glutamic acid and aspartic acid residues. The protein localizes to discrete dots within the nucleus, excluding the nucleolus. Its function is unknown. This gene maps to chromosome 5; however, a pseudogene may exist on chromosome 2. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in testis (RPKM 59.6), bone marrow (RPKM 39.1) and 25 other tissues See more
Orthologs

Genomic context

Location:
5q31.3
Exon count:
19
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 5 NC_000005.10 (140647799..140662480)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (140027384..140042065)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene transmembrane and coiled-coil domains 6 Neighboring gene CD14 molecule Neighboring gene NADH:ubiquinone oxidoreductase subunit A2 Neighboring gene microRNA 3655 Neighboring gene WD repeat domain 55 Neighboring gene DND microRNA-mediated repression inhibitor 1 Neighboring gene histidyl-tRNA synthetase Neighboring gene histidyl-tRNA synthetase 2, mitochondrial

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Jun 15 11:32:44 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Rev rev HIV-1 Rev is identified to have a physical interaction with IK cytokine, down-regulator of HLA II (IK; RED) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC59741

Gene Ontology Provided by GOA

Function Evidence Code Pubs
identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
mRNA splicing, via spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
mitotic cell cycle IMP
Inferred from Mutant Phenotype
more info
PubMed 
mitotic spindle assembly checkpoint IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein localization to kinetochore IMP
Inferred from Mutant Phenotype
more info
PubMed 
viral process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
U2-type precatalytic spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasm IEA
Inferred from Electronic Annotation
more info
 
colocalizes_with mitotic spindle pole IDA
Inferred from Direct Assay
more info
PubMed 
colocalizes_with nuclear chromosome IMP
Inferred from Mutant Phenotype
more info
PubMed 
nuclear speck IDA
Inferred from Direct Assay
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
protein Red
Names
IK cytokine, down-regulator of HLA II
IK factor
RD element
chondrosarcoma-associated protein 2
cytokine IK
prer protein

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_006083.3NP_006074.2  protein Red

    See identical proteins and their annotated locations for NP_006074.2

    Status: REVIEWED

    Source sequence(s)
    AF182645, BC013005, BC071964
    Consensus CDS
    CCDS47280.1
    UniProtKB/Swiss-Prot
    Q13123
    UniProtKB/TrEMBL
    Q95HA6, Q9UK43
    Related
    ENSP00000396301.2, OTTHUMP00000223684, ENST00000417647.6, OTTHUMT00000372897
    Conserved Domains (2) summary
    pfam07807
    Location:445554
    RED_C; RED-like protein C-terminal region
    pfam07808
    Location:83295
    RED_N; RED-like protein N-terminal region

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000005.10 Reference GRCh38.p12 Primary Assembly

    Range
    140647799..140662480
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_002956156.1 RNA Sequence

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