LOCUS       NM_004590               1507 bp    mRNA    linear   PRI 09-FEB-2025
DEFINITION  Homo sapiens C-C motif chemokine ligand 16 (CCL16), mRNA.
ACCESSION   NM_004590
VERSION     NM_004590.4
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 1507)
  AUTHORS   Dai,Z., Wang,Y., Sun,N. and Zhang,C.
  TITLE     Characterizing ligand-receptor interactions and unveiling the
            pro-tumorigenic role of CCL16-CCR1 axis in the microenvironment of
            hepatocellular carcinoma
  JOURNAL   Front Immunol 14, 1299953 (2024)
   PUBMED   38274805
  REMARK    GeneRIF: Characterizing ligand-receptor interactions and unveiling
            the pro-tumorigenic role of CCL16-CCR1 axis in the microenvironment
            of hepatocellular carcinoma.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1507)
  AUTHORS   Bandow,K., Smith,A., Watkins,T., Shenk,S., Gerami-Naini,B. and
            Garlick,J.A.
  TITLE     CC chemokine ligand 20 (CCL20) positively regulates collagen type I
            production in 3D skin equivalent tissues
  JOURNAL   Exp Dermatol 32 (4), 379-391 (2023)
   PUBMED   36398464
REFERENCE   3  (bases 1 to 1507)
  AUTHORS   Weiergraber,O.H., Petrovic,D., Kislat,A., Pattky,M., Fabig,J.,
            Batra-Safferling,R., Schulte Am Esch,J., Hanel,K., Huhn,C.,
            Strodel,B., Homey,B. and Willbold,D.
  TITLE     Structure and Dynamics of Human Chemokine CCL16-Implications for
            Biological Activity
  JOURNAL   Biomolecules 12 (11), 1588 (2022)
   PUBMED   36358937
  REMARK    GeneRIF: Structure and Dynamics of Human Chemokine
            CCL16-Implications for Biological Activity.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 1507)
  AUTHORS   Shen,W., Zhang,X., Tang,J., Zhang,Z., Du,R., Luo,D., Liu,X.,
            Xia,Y., Li,Y., Wang,S., Yan,S., Yang,W., Xiang,R., Luo,N., Luo,Y.
            and Li,J.
  TITLE     CCL16 maintains stem cell-like properties in breast cancer by
            activating CCR2/GSK3beta/beta-catenin/OCT4 axis
  JOURNAL   Theranostics 11 (5), 2297-2317 (2021)
   PUBMED   33500726
  REMARK    GeneRIF: CCL16 maintains stem cell-like properties in breast cancer
            by activating CCR2/GSK3beta/beta-catenin/OCT4 axis.
            Erratum:[Theranostics. 2021 May 15;11(14):7128-7129. doi:
            10.7150/thno.62534.. PMID: 34093876]
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1507)
  AUTHORS   Nomiyama,H., Fukuda,S., Iio,M., Tanase,S., Miura,R. and Yoshie,O.
  TITLE     Organization of the chemokine gene cluster on human chromosome
            17q11.2 containing the genes for CC chemokine MPIF-1, HCC-2, HCC-1,
            LEC, and RANTES
  JOURNAL   J Interferon Cytokine Res 19 (3), 227-234 (1999)
   PUBMED   10213461
REFERENCE   6  (bases 1 to 1507)
  AUTHORS   Youn,B.S., Zhang,S., Broxmeyer,H.E., Antol,K., Fraser,M.J. Jr.,
            Hangoc,G. and Kwon,B.S.
  TITLE     Isolation and characterization of LMC, a novel lymphocyte and
            monocyte chemoattractant human CC chemokine, with myelosuppressive
            activity
  JOURNAL   Biochem Biophys Res Commun 247 (2), 217-222 (1998)
   PUBMED   9642106
REFERENCE   7  (bases 1 to 1507)
  AUTHORS   Hedrick,J.A., Helms,A., Vicari,A. and Zlotnik,A.
  TITLE     Characterization of a novel CC chemokine, HCC-4, whose expression
            is increased by interleukin-10
  JOURNAL   Blood 91 (11), 4242-4247 (1998)
   PUBMED   9596672
REFERENCE   8  (bases 1 to 1507)
  AUTHORS   Shoudai,K., Hieshima,K., Fukuda,S., Iio,M., Miura,R., Imai,T.,
            Yoshie,O. and Nomiyama,H.
  TITLE     Isolation of cDNA encoding a novel human CC chemokine NCC-4/LEC
  JOURNAL   Biochim Biophys Acta 1396 (3), 273-277 (1998)
   PUBMED   9545580
REFERENCE   9  (bases 1 to 1507)
  AUTHORS   Naruse,K., Ueno,M., Satoh,T., Nomiyama,H., Tei,H., Takeda,M.,
            Ledbetter,D.H., Coillie,E.V., Opdenakker,G., Gunge,N., Sakaki,Y.,
            Iio,M. and Miura,R.
  TITLE     A YAC contig of the human CC chemokine genes clustered on
            chromosome 17q11.2
  JOURNAL   Genomics 34 (2), 236-240 (1996)
   PUBMED   8661057
REFERENCE   10 (bases 1 to 1507)
  AUTHORS   Itoh,H., Toyama,R., Kozasa,T., Tsukamoto,T., Matsuoka,M. and
            Kaziro,Y.
  TITLE     Presence of three distinct molecular species of Gi protein alpha
            subunit. Structure of rat cDNAs and human genomic DNAs
  JOURNAL   J Biol Chem 263 (14), 6656-6664 (1988)
   PUBMED   2834384
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC244100.3, AB007454.1 and
            AF039955.1.
            
            On Nov 22, 2018 this sequence version replaced NM_004590.3.
            
            Summary: This gene is one of several cytokine genes clustered on
            the q-arm of chromosome 17. Cytokines are a family of secreted
            proteins involved in immunoregulatory and inflammatory processes.
            The CC cytokines are proteins characterized by two adjacent
            cysteines. The cytokine encoded by this gene displays chemotactic
            activity for lymphocytes and monocytes but not for neutrophils.
            This cytokine also shows a potent myelosuppressive activity and
            suppresses proliferation of myeloid progenitor cells. The
            expression of this gene is upregulated by IL-10. [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 :: AF039955.1, AB007454.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2145122 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000611905.2/ ENSP00000478024.1
            RefSeq Select criteria :: based on expression, longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1                 AC244100.3         146181-146181       c
            2-10                AB007454.1         1-9
            11-1475             AF039955.1         1-1465
            1476-1476           AC244100.3         141214-141214       c
            1477-1507           AF039955.1         1467-1497
FEATURES             Location/Qualifiers
     source          1..1507
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="17"
                     /map="17q12"
     gene            1..1507
                     /gene="CCL16"
                     /gene_synonym="CKb12; HCC-4; ILINCK; LCC-1; LEC; LMC;
                     Mtn-1; NCC-4; NCC4; SCYA16; SCYL4"
                     /note="C-C motif chemokine ligand 16"
                     /db_xref="GeneID:6360"
                     /db_xref="HGNC:HGNC:10614"
                     /db_xref="MIM:601394"
     exon            1..153
                     /gene="CCL16"
                     /gene_synonym="CKb12; HCC-4; ILINCK; LCC-1; LEC; LMC;
                     Mtn-1; NCC-4; NCC4; SCYA16; SCYL4"
                     /inference="alignment:Splign:2.1.0"
     CDS             78..440
                     /gene="CCL16"
                     /gene_synonym="CKb12; HCC-4; ILINCK; LCC-1; LEC; LMC;
                     Mtn-1; NCC-4; NCC4; SCYA16; SCYL4"
                     /note="small inducible cytokine subfamily A (Cys-Cys),
                     member 16; new CC chemokine 4; IL-10-inducible chemokine;
                     chemokine LEC; liver-expressed chemokine; monotactin-1;
                     lymphocyte and monocyte chemoattractant; liver CC
                     chemokine-1; chemokine (C-C motif) ligand 16; C-C motif
                     chemokine 16; small-inducible cytokine A16"
                     /codon_start=1
                     /product="C-C motif chemokine 16 precursor"
                     /protein_id="NP_004581.1"
                     /db_xref="CCDS:CCDS11303.1"
                     /db_xref="GeneID:6360"
                     /db_xref="HGNC:HGNC:10614"
                     /db_xref="MIM:601394"
                     /translation="MKVSEAALSLLVLILIITSASRSQPKVPEWVNTPSTCCLKYYEK
                     VLPRRLVVGYRKALNCHLPAIIFVTKRNREVCTNPNDDWVQEYIKDPNLPLLPTRNLS
                     TVKIITAKNGQPQLLNSQ"
     exon            154..274
                     /gene="CCL16"
                     /gene_synonym="CKb12; HCC-4; ILINCK; LCC-1; LEC; LMC;
                     Mtn-1; NCC-4; NCC4; SCYA16; SCYL4"
                     /inference="alignment:Splign:2.1.0"
     exon            275..1507
                     /gene="CCL16"
                     /gene_synonym="CKb12; HCC-4; ILINCK; LCC-1; LEC; LMC;
                     Mtn-1; NCC-4; NCC4; SCYA16; SCYL4"
                     /inference="alignment:Splign:2.1.0"
     regulatory      561..566
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CCL16"
                     /gene_synonym="CKb12; HCC-4; ILINCK; LCC-1; LEC; LMC;
                     Mtn-1; NCC-4; NCC4; SCYA16; SCYL4"
                     /note="hexamer: AATAAA"
     polyA_site      582
                     /gene="CCL16"
                     /gene_synonym="CKb12; HCC-4; ILINCK; LCC-1; LEC; LMC;
                     Mtn-1; NCC-4; NCC4; SCYA16; SCYL4"
                     /note="major polyA site"
     regulatory      1486..1491
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CCL16"
                     /gene_synonym="CKb12; HCC-4; ILINCK; LCC-1; LEC; LMC;
                     Mtn-1; NCC-4; NCC4; SCYA16; SCYL4"
                     /note="hexamer: AATAAA"
     polyA_site      1507
                     /gene="CCL16"
                     /gene_synonym="CKb12; HCC-4; ILINCK; LCC-1; LEC; LMC;
                     Mtn-1; NCC-4; NCC4; SCYA16; SCYL4"
                     /note="major polyA site"
ORIGIN      
        1 agttggcaag cggaccacca gcaacagaca acatcttcat tcggctctcc ctgaagctgt
       61 actgcctcgc tgagaggatg aaggtctccg aggctgccct gtctctcctt gtcctcatcc
      121 ttatcattac ttcggcttct cgcagccagc caaaagttcc tgagtgggtg aacaccccat
      181 ccacctgctg cctgaagtat tatgagaaag tgttgccaag gagactagtg gtgggataca
      241 gaaaggccct caactgtcac ctgccagcaa tcatcttcgt caccaagagg aaccgagaag
      301 tctgcaccaa ccccaatgac gactgggtcc aagagtacat caaggatccc aacctacctt
      361 tgctgcctac caggaacttg tccacggtta aaattattac agcaaagaat ggtcaacccc
      421 agctcctcaa ctcccagtga tgaccaggct ttagtggaag cccttgttta cagaagagag
      481 gggtaaacct atgaaaacag gggaagcctt attaggctga aactagccag tcacattgag
      541 agaagcagaa caatgatcaa aataaaggag aagtatttcg aatattttct caatcttagg
      601 aggaaatacc aaagttaagg gacgtgggca gaggtacgct cttttatttt tatatttata
      661 tttttatttt tttgagatag ggtcttactc tgtcacccag gctggagtgc agtggtgtga
      721 tcttggctca cttgatcttg gctcactgta acctccacct cccaggctca agtgatcctc
      781 ccaccccagc ctcccgagta gctgggacta caggcttgcg ccaccacacc tggctaattt
      841 ttgtattttt ggtagagacg ggattctacc atgttgccca ggctggtctc aaactcgtgt
      901 gcccaagcaa tccacctgcc tcagccttcc aaaagtgctg ggattacagg cgtgagccac
      961 cacatccggc cagtgcactc ttaatacaca gaaaaatata tttcacatcc ttctcctgct
     1021 ctctttcaat tcctcacttc acaccagtac acaagccatt ctaaatactt agccagtttc
     1081 cagccttcca gatgatcttt gccctctggg tcttgaccca ttaagagccc catagaactc
     1141 ttgatttttc ctgtccatct ttatggattt ttctggatct atattttctt caattattct
     1201 ttcattttat aatgcaactt tttcatagga agtccggatg ggaatattca cattaatcat
     1261 ttttgcagag actttgctag atcctctcat attttgtctt cctcagggtg gcaggggtac
     1321 agagagtgcc tgattggaaa aaaaaaaaaa agagagagag agagaagaag aagaagaaga
     1381 gacacaaatc tctacctccc atgttaagct ttgcaggaca gggaaagaaa gggtatgaga
     1441 cacggctagg ggtaaactct tagtccaaaa cccaaacatg caataaataa aactccctta
     1501 tttgaca
//
