Human Gene IK (uc003lgq.3) Description and Page Index
Description: Homo sapiens IK cytokine, down-regulator of HLA II (IK), mRNA. RefSeq Summary (NM_006083): 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]. Publication Note: This RefSeq record includes a subset of the publications that are available for this gene. Please see the Gene record to access additional publications. ##Evidence-Data-START## Transcript exon combination :: SRR3476690.680642.1, SRR3476690.957447.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA1965299, SAMEA1966682 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## MANE Ensembl match :: ENST00000417647.7/ ENSP00000396301.2 RefSeq Select criteria :: based on single protein-coding transcript ##RefSeq-Attributes-END## Transcript (Including UTRs) Position: hg19 chr5:140,027,384-140,042,065 Size: 14,682 Total Exon Count: 20 Strand: + Coding Region Position: hg19 chr5:140,027,494-140,041,914 Size: 14,421 Coding Exon Count: 20
ID:RED_HUMAN DESCRIPTION: RecName: Full=Protein Red; AltName: Full=Cytokine IK; AltName: Full=IK factor; AltName: Full=Protein RER; FUNCTION: May bind to chromatin. INTERACTION: P04618:rev (xeno); NbExp=3; IntAct=EBI-713456, EBI-6164309; SUBCELLULAR LOCATION: Nucleus. TISSUE SPECIFICITY: Ubiquitous. DEVELOPMENTAL STAGE: Expressed at similar levels in fetal and adult tissues. PTM: Phosphorylated upon DNA damage, probably by ATM or ATR. SIMILARITY: Belongs to the RED family. CAUTION: Was originally (PubMed:7970704) thought to be the IK factor, a cytokine involved in the negative regulatory pathway of constitutive MHC class II antigens expression.
Genetic Association Studies of Complex Diseases and Disorders
Genetic Association Database (archive): IK CDC HuGE Published Literature: IK
The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.
Pfam Domains: PF07807 - RED-like protein C-terminal region PF07808 - RED-like protein N-terminal region
ModBase Predicted Comparative 3D Structure on Q13123
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.
Orthologous Genes in Other Species
Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
AF182645 - Homo sapiens chondrosarcoma-associated protein 2 (CSA2) mRNA, complete cds. JD139622 - Sequence 120646 from Patent EP1572962. AK225924 - Homo sapiens mRNA for RED protein variant, clone: FCC118A06. AK312363 - Homo sapiens cDNA, FLJ92684, highly similar to Homo sapiens IK cytokine, down-regulator of HLA II (IK), mRNA. AL050296 - Homo sapiens mRNA; cDNA DKFZp564B112 (from clone DKFZp564B112). AK293626 - Homo sapiens cDNA FLJ53904 complete cds, highly similar to Protein Red. BC051295 - Homo sapiens IK cytokine, down-regulator of HLA II, mRNA (cDNA clone IMAGE:3635553). HZ480287 - JP 2015535430-A/793: TERMINALLY MODIFIED RNA. HZ790218 - JP 2016504050-A/1963: SIGNAL-SENSOR POLYNUCLEOTIDES FOR THE ALTERATION OF CELLULAR PHENOTYPES. JC512950 - Sequence 3203 from Patent WO2014113089. LF160390 - JP 2016513950-A/456: Oligomers with improved off-target profile. LQ070538 - Sequence 862 from Patent EP2964234. HZ409117 - JP 2015528002-A/1714: CHIRAL CONTROL. LG052451 - KR 1020150036642-A/1717: CHIRAL CONTROL. BC013005 - Homo sapiens IK cytokine, down-regulator of HLA II, mRNA (cDNA clone MGC:3980 IMAGE:3030079), complete cds. BC071964 - Homo sapiens IK cytokine, down-regulator of HLA II, mRNA (cDNA clone MGC:88657 IMAGE:6461871), complete cds. AK308730 - Homo sapiens cDNA, FLJ98771. AY007094 - Homo sapiens clone TCCCIA00142 mRNA sequence. CU687202 - Synthetic construct Homo sapiens gateway clone IMAGE:100023141 5' read IK mRNA. AB591032 - Synthetic construct DNA, clone: pFN21AE1980, Homo sapiens IK gene for IK cytokine, down-regulator of HLA II, without stop codon, in Flexi system. AJ005579 - Homo sapiens mRNA for Prer protein. A25270 - Human IFN-gamma antagonist cytokine cDNA. S74221 - IK=IK factor [human, leukemic cells K562, chronic myeloid leukemia patient, mRNA, 756 nt]. JD396722 - Sequence 377746 from Patent EP1572962. JD087376 - Sequence 68400 from Patent EP1572962. AK097968 - Homo sapiens cDNA FLJ40649 fis, clone THYMU2018028, moderately similar to RED PROTEIN. JD362080 - Sequence 343104 from Patent EP1572962. JD085306 - Sequence 66330 from Patent EP1572962. JD558165 - Sequence 539189 from Patent EP1572962. MA644039 - JP 2017113010-A/1963: SIGNAL-SENSOR POLYNUCLEOTIDES FOR THE ALTERATION OF CELLULAR PHENOTYPES. MA731923 - JP 2017140048-A/793: TERMINALLY MODIFIED RNA. MA801092 - JP 2018183181-A/1963: SIGNAL-SENSOR POLYNUCLEOTIDES FOR THE ALTERATION OF CELLULAR PHENOTYPES.