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Aliases for IK Gene

Aliases for IK Gene

  • IK Cytokine 2 3 5
  • IK Cytokine, Down-Regulator Of HLA II 2 3
  • Cytokine IK 3 4
  • IK Factor 3 4
  • RED 3 4
  • RER 3 4
  • Chondrosarcoma-Associated Protein 2 3
  • Prer Protein 3
  • Protein Red 3
  • Protein RER 4
  • RD Element 3
  • CSA2 3

External Ids for IK Gene

Previous GeneCards Identifiers for IK Gene

  • GC05P139843
  • GC05P140610
  • GC05P140009
  • GC05P140055
  • GC05P139992
  • GC05P139993
  • GC05P140007
  • GC05P140028
  • GC05P135173
  • GC05P141198
  • GC05P141473
  • GC05P141579
  • GC05P141687
  • GC05P141789
  • GC05P141881
  • GC05P141989

Summaries for IK Gene

Entrez Gene Summary for IK Gene

  • 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]

GeneCards Summary for IK Gene

IK (IK Cytokine) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include identical protein binding.

UniProtKB/Swiss-Prot for IK Gene

  • Auxiliary spliceosomal protein that regulates selection of alternative splice sites in a small set of target pre-mRNA species (Probable). Required for normal mitotic cell cycle progression (PubMed:22351768, PubMed:24252166). Recruits MAD1L1 and MAD2L1 to kinetochores, and is required to trigger the spindle assembly checkpoint (PubMed:22351768). Required for normal accumulation of SMU1 (PubMed:24945353).

  • (Microbial infection) Required, together with SMU1, for normal splicing of influenza A virus NS1 pre-mRNA, which is required for the production of the exportin NS2 and for the production of influenza A virus particles. Not required for the production of VSV virus particles.

Gene Wiki entry for IK Gene

Additional gene information for IK Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for IK Gene

Genomics for IK Gene

GeneHancer (GH) Regulatory Elements for IK Gene

Promoters and enhancers for IK Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH05I140646 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 550.8 +0.6 561 2.4 HDGF FOXA2 PKNOX1 SMAD1 ARNT SIN3A DMAP1 ZNF2 YY1 POLR2B IK NDUFA2 MIR3655 ANKHD1 LOC102723915 HDAC3 WDR55 HARS2 SRA1 TMCO6
GH05I140399 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 22.8 -245.0 -245029 4.7 CLOCK ZFP64 DMAP1 YY1 ZNF213 E2F8 ZNF143 SP3 NFYC ZNF610 ANKHD1 ANKHD1-EIF4EBP3 ENSG00000249637 PURA HARS2 PCDHB18P PCDHGA6 IK APBB3 PCDHGA7
GH05I139633 Promoter/Enhancer 2.9 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 12.9 -993.7 -993692 40.3 CLOCK MLX ZFP64 YBX1 FEZF1 DMAP1 IRF4 YY1 ZNF213 E2F8 CXXC5 ANKHD1 TMCO6 IK TMEM173 LOC101929719 APBB3 PSD2 DNAJC18 LOC105379194
GH05I139744 Enhancer 1.5 Ensembl ENCODE dbSUPER 21.2 -900.7 -900658 4.7 HDGF PKNOX1 SMAD1 FEZF1 DMAP1 YBX1 ZNF2 YY1 ZNF213 ZNF416 PSD2-AS1 HARS2 ANKHD1 WDR55 IK TMCO6 MALINC1 PSD2 PURA LOC101929719
GH05I141563 Enhancer 1.4 Ensembl ENCODE dbSUPER 20.1 +917.4 917355 1.4 FOXA2 PKNOX1 ARNT DMAP1 ZNF2 IRF4 YY1 ZNF213 ZNF207 ZNF143 HARS2 IK PCDHB8 PCDHB3 PCDHA6 PCDHB9 PCDHB7 ENSG00000272108 PCDHB15 PCDHGC3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around IK on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the IK gene promoter:

Genomic Locations for IK Gene

Genomic Locations for IK Gene
chr5:140,647,058-140,662,480
(GRCh38/hg38)
Size:
15,423 bases
Orientation:
Plus strand
chr5:140,026,643-140,042,065
(GRCh37/hg19)

Genomic View for IK Gene

Genes around IK on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
IK Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for IK Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for IK Gene

Proteins for IK Gene

  • Protein details for IK Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q13123-RED_HUMAN
    Recommended name:
    Protein Red
    Protein Accession:
    Q13123
    Secondary Accessions:
    • Q6IPD8

    Protein attributes for IK Gene

    Size:
    557 amino acids
    Molecular mass:
    65602 Da
    Quaternary structure:
    • (Microbial infection) Identified in a complex with SMU1 and influenza A virus RNA polymerase subunits PB1 and PB2. Directly interacts with SMU1 and with influenza A virus RNA polymerase subunits PB1 and PB2.
    • Interacts with SMU1 (PubMed:22365833, PubMed:24945353). Probable component of the spliceosome B complex (PubMed:22365833). Interacts with MAD1L1 (PubMed:22351768). May interact with DHX15 (PubMed:24252166).

    Three dimensional structures from OCA and Proteopedia for IK Gene

neXtProt entry for IK Gene

Post-translational modifications for IK Gene

  • Ubiquitination at isoforms=164, isoforms=173, and posLast=260260

Other Protein References for IK Gene

No data available for DME Specific Peptides for IK Gene

Domains & Families for IK Gene

Gene Families for IK Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for IK Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for IK Gene

Graphical View of Domain Structure for InterPro Entry

Q13123

UniProtKB/Swiss-Prot:

RED_HUMAN :
  • Belongs to the RED family.
Family:
  • Belongs to the RED family.
genes like me logo Genes that share domains with IK: view

Function for IK Gene

Molecular function for IK Gene

GENATLAS Biochemistry:
cytokine IK (19kDa) downregulating HLA class II expression on the cell surface
UniProtKB/Swiss-Prot Function:
Auxiliary spliceosomal protein that regulates selection of alternative splice sites in a small set of target pre-mRNA species (Probable). Required for normal mitotic cell cycle progression (PubMed:22351768, PubMed:24252166). Recruits MAD1L1 and MAD2L1 to kinetochores, and is required to trigger the spindle assembly checkpoint (PubMed:22351768). Required for normal accumulation of SMU1 (PubMed:24945353).
UniProtKB/Swiss-Prot Function:
(Microbial infection) Required, together with SMU1, for normal splicing of influenza A virus NS1 pre-mRNA, which is required for the production of the exportin NS2 and for the production of influenza A virus particles. Not required for the production of VSV virus particles.
UniProtKB/Swiss-Prot Induction:
Up-regulated during mitosis (at protein level).

Phenotypes From GWAS Catalog for IK Gene

Gene Ontology (GO) - Molecular Function for IK Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 22190034
GO:0042802 identical protein binding IPI 22365833
genes like me logo Genes that share ontologies with IK: view
genes like me logo Genes that share phenotypes with IK: view

Animal Model Products

CRISPR Products

miRNA for IK Gene

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for IK Gene

Localization for IK Gene

Subcellular locations from UniProtKB/Swiss-Prot for IK Gene

Nucleus. Nucleus, nucleoplasm. Chromosome. Cytoplasm, cytoskeleton, spindle pole. Note=Predominantly present throughout the nucleoplasm during prometaphase, metaphase and anaphase. Is also detected in nuclear foci that are not identical with Cajal bodies. Starts to accumulate at chromosomes during telophase, and is nearly exclusively associated with chromosomes in newly divided cells (PubMed:24252166). Colocalizes with MAD1L1 at mitotic spindle poles during metaphase and anaphase (PubMed:22351768). {ECO:0000269 PubMed:24252166}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for IK gene
Compartment Confidence
nucleus 5
cytoskeleton 3
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear speckles (4)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for IK Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000228 colocalizes_with nuclear chromosome IMP 24252166
GO:0000922 spindle pole IEA --
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm IDA,IEA 24252166
GO:0005681 spliceosomal complex IEA --
genes like me logo Genes that share ontologies with IK: view

Pathways & Interactions for IK Gene

No Data Available

Gene Ontology (GO) - Biological Process for IK Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000278 mitotic cell cycle IMP 24252166
GO:0006397 mRNA processing IEA --
GO:0007094 mitotic spindle assembly checkpoint IMP 22351768
GO:0008380 RNA splicing IEA --
GO:0016032 viral process IEA --
genes like me logo Genes that share ontologies with IK: view

No data available for Pathways by source and SIGNOR curated interactions for IK Gene

Drugs & Compounds for IK Gene

No Compound Related Data Available

Transcripts for IK Gene

Unigene Clusters for IK Gene

IK cytokine, down-regulator of HLA II:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for IK Gene

No ASD Table

Relevant External Links for IK Gene

GeneLoc Exon Structure for
IK
ECgene alternative splicing isoforms for
IK

Expression for IK Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for IK Gene

Protein differential expression in normal tissues from HIPED for IK Gene

This gene is overexpressed in Adrenal (14.1), Peripheral blood mononuclear cells (13.0), and Blymphocyte (6.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for IK Gene



Protein tissue co-expression partners for IK Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of IK Gene:

IK

SOURCE GeneReport for Unigene cluster for IK Gene:

Hs.421245

mRNA Expression by UniProt/SwissProt for IK Gene:

Q13123-RED_HUMAN
Tissue specificity: Ubiquitous.

Evidence on tissue expression from TISSUES for IK Gene

  • Lung(4.7)
  • Nervous system(4.7)
  • Liver(4.5)
  • Skin(3.4)
  • Eye(2.9)
  • Intestine(2.5)
  • Heart(2.4)
  • Muscle(2.4)
  • Spleen(2.4)
  • Blood(2.2)
  • Kidney(2.2)
genes like me logo Genes that share expression patterns with IK: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for IK Gene

Orthologs for IK Gene

This gene was present in the common ancestor of animals.

Orthologs for IK Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia IK 33
  • 99.76 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia IK 34
  • 92 (a)
OneToOne
cow
(Bos Taurus)
Mammalia IK 33 34
  • 91.83 (n)
dog
(Canis familiaris)
Mammalia IK 33
  • 91.65 (n)
mouse
(Mus musculus)
Mammalia Ik 33 16 34
  • 90.84 (n)
rat
(Rattus norvegicus)
Mammalia Ik 33
  • 90.31 (n)
chicken
(Gallus gallus)
Aves IK 33 34
  • 83.91 (n)
lizard
(Anolis carolinensis)
Reptilia IK 34
  • 51 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.11062 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.24451 33
zebrafish
(Danio rerio)
Actinopterygii ik 33 34
  • 75.56 (n)
wufb54c03 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.755 33
fruit fly
(Drosophila melanogaster)
Insecta CG18005 35 34
  • 64 (a)
beag 33
  • 57.77 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP004738 33
  • 58.55 (n)
worm
(Caenorhabditis elegans)
Secernentea smu-2 34
  • 35 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10369 34
  • 52 (a)
OneToOne
Species where no ortholog for IK was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for IK Gene

ENSEMBL:
Gene Tree for IK (if available)
TreeFam:
Gene Tree for IK (if available)

Paralogs for IK Gene

No data available for Paralogs for IK Gene

Variants for IK Gene

Sequence variations from dbSNP and Humsavar for IK Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs143857164 uncertain-significance, Mitochondrial complex I deficiency 140,647,633(+) C/G/T upstream_transcript_variant
rs200255683 uncertain-significance, Mitochondrial complex I deficiency 140,647,287(+) G/A/T upstream_transcript_variant
rs35672074 benign, likely-benign, not specified, not provided 140,647,544(+) G/A/C upstream_transcript_variant
rs745399748 uncertain-significance, Mitochondrial complex I deficiency 140,647,329(+) C/T upstream_transcript_variant
rs747127939 uncertain-significance, Mitochondrial complex I deficiency 140,647,636(+) T/A/C upstream_transcript_variant

Variation tolerance for IK Gene

Residual Variation Intolerance Score: 29% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.33; 26.31% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for IK Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
IK

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for IK Gene

Disorders for IK Gene

Additional Disease Information for IK

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for IK Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for IK Gene

Publications for IK Gene

  1. A new cytokine (IK) down-regulating HLA class II: monoclonal antibodies, cloning and chromosome localization. (PMID: 7970704) Krief P … Azzarone B (Oncogene 1994) 2 3 4 22 58
  2. Recruitment of RED-SMU1 complex by Influenza A Virus RNA polymerase to control Viral mRNA splicing. (PMID: 24945353) Fournier G … Naffakh N (PLoS pathogens 2014) 3 4 58
  3. Nuclear protein IK undergoes dynamic subcellular translocation and forms unique nuclear bodies during the cell cycle. (PMID: 24252166) Hu L … Dai W (Biomarker research 2013) 3 4 58
  4. Dynamic protein-protein interaction wiring of the human spliceosome. (PMID: 22365833) Hegele A … Stelzl U (Molecular cell 2012) 3 4 58
  5. RED, a spindle pole-associated protein, is required for kinetochore localization of MAD1, mitotic progression, and activation of the spindle assembly checkpoint. (PMID: 22351768) Yeh PC … Juang YL (The Journal of biological chemistry 2012) 3 4 58

Products for IK Gene

Sources for IK Gene

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