LOCUS       NM_006083               1905 bp    mRNA    linear   PRI 20-FEB-2025
DEFINITION  Homo sapiens IK cytokine (IK), mRNA.
ACCESSION   NM_006083 NM_004511
VERSION     NM_006083.4
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 1905)
  AUTHORS   Khoroshkin,M., Buyan,A., Dodel,M., Navickas,A., Yu,J., Trejo,F.,
            Doty,A., Baratam,R., Zhou,S., Lee,S.B., Joshi,T., Garcia,K.,
            Choi,B., Miglani,S., Subramanyam,V., Modi,H., Carpenter,C.,
            Markett,D., Corces,M.R., Mardakheh,F.K., Kulakovskiy,I.V. and
            Goodarzi,H.
  TITLE     Systematic identification of post-transcriptional regulatory
            modules
  JOURNAL   Nat Commun 15 (1), 7872 (2024)
   PUBMED   39251607
  REMARK    Erratum:[Nat Commun. 2024 Oct 28;15(1):9277. doi:
            10.1038/s41467-024-52903-4.. PMID: 39468017]
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1905)
  AUTHORS   von Elsner,L., Chai,G., Schneeberger,P.E., Harms,F.L., Casar,C.,
            Qi,M., Alawi,M., Abdel-Salam,G.M.H., Zaki,M.S., Arndt,F., Yang,X.,
            Stanley,V., Hempel,M., Gleeson,J.G. and Kutsche,K.
  TITLE     Biallelic FRA10AC1 variants cause a neurodevelopmental disorder
            with growth retardation
  JOURNAL   Brain 145 (4), 1551-1563 (2022)
   PUBMED   34694367
REFERENCE   3  (bases 1 to 1905)
  AUTHORS   Gao,C., Han,Y., Bai,L., Wang,Y. and Xue,F.
  TITLE     IK: A novel cell mitosis regulator that contributes to
            carcinogenesis
  JOURNAL   Cell Biochem Funct 39 (7), 854-859 (2021)
   PUBMED   34250629
  REMARK    GeneRIF: IK: A novel cell mitosis regulator that contributes to
            carcinogenesis.
            Review article
REFERENCE   4  (bases 1 to 1905)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   5  (bases 1 to 1905)
  AUTHORS   Haenig,C., Atias,N., Taylor,A.K., Mazza,A., Schaefer,M.H., Russ,J.,
            Riechers,S.P., Jain,S., Coughlin,M., Fontaine,J.F., Freibaum,B.D.,
            Brusendorf,L., Zenkner,M., Porras,P., Stroedicke,M., Schnoegl,S.,
            Arnsburg,K., Boeddrich,A., Pigazzini,L., Heutink,P., Taylor,J.P.,
            Kirstein,J., Andrade-Navarro,M.A., Sharan,R. and Wanker,E.E.
  TITLE     Interactome Mapping Provides a Network of Neurodegenerative Disease
            Proteins and Uncovers Widespread Protein Aggregation in Affected
            Brains
  JOURNAL   Cell Rep 32 (7), 108050 (2020)
   PUBMED   32814053
REFERENCE   6  (bases 1 to 1905)
  AUTHORS   Stelzl,U., Worm,U., Lalowski,M., Haenig,C., Brembeck,F.H.,
            Goehler,H., Stroedicke,M., Zenkner,M., Schoenherr,A., Koeppen,S.,
            Timm,J., Mintzlaff,S., Abraham,C., Bock,N., Kietzmann,S.,
            Goedde,A., Toksoz,E., Droege,A., Krobitsch,S., Korn,B.,
            Birchmeier,W., Lehrach,H. and Wanker,E.E.
  TITLE     A human protein-protein interaction network: a resource for
            annotating the proteome
  JOURNAL   Cell 122 (6), 957-968 (2005)
   PUBMED   16169070
REFERENCE   7  (bases 1 to 1905)
  AUTHORS   Willers,J., Haffner,A., Zepter,K., Storz,M., Urosevic,M., Burg,G.
            and Dummer,R.
  TITLE     The interferon inhibiting cytokine IK is overexpressed in cutaneous
            T cell lymphoma derived tumor cells that fail to upregulate major
            histocompatibility complex class II upon interferon-gamma
            stimulation
  JOURNAL   J Invest Dermatol 116 (6), 874-879 (2001)
   PUBMED   11407974
REFERENCE   8  (bases 1 to 1905)
  AUTHORS   Assier,E., Bouzinba-Segard,H., Stolzenberg,M.C., Stephens,R.,
            Bardos,J., Freemont,P., Charron,D., Trowsdale,J. and Rich,T.
  TITLE     Isolation, sequencing and expression of RED, a novel human gene
            encoding an acidic-basic dipeptide repeat
  JOURNAL   Gene 230 (2), 145-154 (1999)
   PUBMED   10216252
REFERENCE   9  (bases 1 to 1905)
  AUTHORS   Cao,L.X., Le Bousse-Kerdiles,M.C., Clay,D., Oshevski,S., Jasmin,C.
            and Krief,P.
  TITLE     Implication of a new molecule IK in CD34+ hematopoietic progenitor
            cell proliferation and differentiation
  JOURNAL   Blood 89 (10), 3615-3623 (1997)
   PUBMED   9160666
REFERENCE   10 (bases 1 to 1905)
  AUTHORS   Krief,P., Augery-Bourget,Y., Plaisance,S., Merck,M.F., Assier,E.,
            Tanchou,V., Billard,M., Boucheix,C., Jasmin,C. and Azzarone,B.
  TITLE     A new cytokine (IK) down-regulating HLA class II: monoclonal
            antibodies, cloning and chromosome localization
  JOURNAL   Oncogene 9 (12), 3449-3456 (1994)
   PUBMED   7970704
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AF182645.1, BC071964.1 and
            BC013005.2.
            
            On Nov 22, 2018 this sequence version replaced NM_006083.3.
            
            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].
            
            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##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-22                AF182645.1         32-53
            23-1903             BC071964.1         1-1881
            1904-1905           BC013005.2         1889-1890
FEATURES             Location/Qualifiers
     source          1..1905
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="5"
                     /map="5q31.3"
     gene            1..1905
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /note="IK cytokine"
                     /db_xref="GeneID:3550"
                     /db_xref="HGNC:HGNC:5958"
                     /db_xref="MIM:600549"
     exon            1..96
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     CDS             81..1754
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /note="RD element; prer protein; IK factor; IK cytokine,
                     down-regulator of HLA II; chondrosarcoma-associated
                     protein 2; cytokine IK"
                     /codon_start=1
                     /product="protein Red"
                     /protein_id="NP_006074.2"
                     /db_xref="CCDS:CCDS47280.1"
                     /db_xref="GeneID:3550"
                     /db_xref="HGNC:HGNC:5958"
                     /db_xref="MIM:600549"
                     /translation="MPERDSEPFSNPLAPDGHDVDDPHSFHQSKLTNEDFRKLLMTPR
                     AAPTSAPPSKSRHHEMPREYNEDEDPAARRRKKKSYYAKLRQQEIERERELAEKYRDR
                     AKERRDGVNKDYEETELISTTANYRAVGPTAEADKSAAEKRRQLIQESKFLGGDMEHT
                     HLVKGLDFALLQKVRAEIASKEKEEEELMEKPQKETKKDEDPENKIEFKTRLGRNVYR
                     MLFKSKAYERNELFLPGRMAYVVDLDDEYADTDIPTTLIRSKADCPTMEAQTTLTTND
                     IVISKLTQILSYLRQGTRNKKLKKKDKGKLEEKKPPEADMNIFEDIGDYVPSTTKTPR
                     DKERERYRERERDRERDRDRDRERERERDRERERERDREREEEKKRHSYFEKPKVDDE
                     PMDVDKGPGSTKELIKSINEKFAGSAGWEGTESLKKPEDKKQLGDFFGMSNSYAECYP
                     ATMDDMAVDSDEEVDYSKMDQGNKKGPLGRWDFDTQEEYSEYMNNKEALPKAAFQYGI
                     KMSEGRKTRRFKETNDKAELDRQWKKISAIIEKRKKMEADGVEVKRPKY"
     exon            97..163
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     exon            164..256
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     exon            257..316
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     exon            317..484
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     exon            485..599
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     exon            600..670
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     exon            671..717
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     exon            718..881
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     exon            882..990
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     exon            991..1030
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     exon            1031..1256
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     exon            1257..1275
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     exon            1276..1354
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     exon            1355..1435
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     exon            1436..1493
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     exon            1494..1582
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     exon            1583..1691
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     exon            1692..1726
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     exon            1727..1905
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1884..1889
                     /regulatory_class="polyA_signal_sequence"
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /note="hexamer: ATTAAA"
     polyA_site      1905
                     /gene="IK"
                     /gene_synonym="CSA2; RED; RER"
                     /note="major polyA site"
ORIGIN      
        1 gcactgtggg aaagagcttg tcgctgcggt gttgctgttg gagactcgat tgttggtgac
       61 agcgaaagaa cgataacaaa atgccggagc gagatagtga gccgttctcc aaccctttgg
      121 cccccgatgg ccacgatgtg gatgatcctc actccttcca ccaatcaaaa ctcaccaatg
      181 aagacttcag gaaacttctc atgaccccca gggctgcacc tacctctgca ccaccttcta
      241 agtcacgtca ccatgagatg ccaagggagt acaatgagga tgaagaccca gctgcacgaa
      301 ggaggaaaaa gaaaagttat tatgccaagc tacgccaaca agaaattgag agagagagag
      361 agctagcaga gaagtaccgg gatcgtgcca aggaacggag agatggagtg aacaaagatt
      421 atgaagaaac cgagcttatc agcaccacag ctaactatag ggctgttggc cccactgctg
      481 aggcggacaa atcagctgca gagaagagaa gacagttgat ccaggagtcc aaattcttgg
      541 gtggtgacat ggaacacacc catttggtga aaggcttgga ttttgctctg cttcaaaagg
      601 tacgagctga gattgccagc aaagagaaag aggaagagga actgatggaa aagccccaga
      661 aagaaaccaa gaaagatgag gatcctgaaa ataaaattga atttaaaaca cgtctgggcc
      721 gcaatgttta ccgaatgctt tttaagagca aagcatatga gcggaatgag ttgttcctgc
      781 cgggccgcat ggcctatgtg gtagacctgg atgatgagta tgctgacaca gatatcccca
      841 ccactcttat ccgcagcaag gctgattgcc ccaccatgga ggcccagacc acactgacca
      901 caaatgacat tgtcattagc aagctgaccc agatcctttc atacctgagg cagggaaccc
      961 gtaacaagaa gcttaagaag aaggataaag ggaagctgga agagaagaaa cctcctgagg
     1021 ctgacatgaa tatttttgaa gacattgggg attacgtacc ctccacaacc aagacacctc
     1081 gggacaagga gcgggagaga tatcgggaac gggagcgtga tcgggaaaga gacagagacc
     1141 gtgaccgaga gcgagagcga gaacgagatc gggaacgaga gcgagagcgg gaccgagaga
     1201 gagaagagga aaagaagaga cacagctact ttgagaagcc aaaagtagat gatgagccca
     1261 tggacgttga caaaggacct gggtctacca aggagttgat caagtccatc aatgaaaagt
     1321 ttgctgggtc tgctggctgg gaaggcacag aatcgctgaa gaagccagaa gacaaaaagc
     1381 agctgggaga tttctttggc atgtccaaca gttatgcaga gtgctaccca gccacgatgg
     1441 atgacatggc tgtggatagt gatgaggagg tggattatag caaaatggac cagggtaaca
     1501 agaaggggcc cttaggccgt tgggactttg atacccagga agaatacagc gagtatatga
     1561 acaacaaaga agctttgccc aaggctgcat tccagtatgg tatcaaaatg tctgaagggc
     1621 ggaaaaccag gcgcttcaag gaaaccaatg acaaagcaga gcttgatcgc cagtggaaga
     1681 agattagtgc aatcattgag aagaggaaga agatggaagc tgatggggtt gaagtcaaaa
     1741 gaccaaaata ctaatcacta gttacaacca gagatgctcc acaaggatat gctccccact
     1801 gttttctttc tacaatttcc aaaggttgca agatgttttt ttgtggatga atataaaatt
     1861 ttattgtgta attacttggt tccattaaaa ttggttaact tgcta
//
