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2019-03-22 05:04:21, GGRNA : RefSeq release 60 (20130726)

LOCUS       NM_001278736            1319 bp    mRNA    linear   PRI 17-JUL-2013
DEFINITION  Homo sapiens chemokine (C-C motif) ligand 5 (CCL5), transcript
            variant 2, mRNA.
ACCESSION   NM_001278736
VERSION     NM_001278736.1  GI:524563422
KEYWORDS    RefSeq.
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 1319)
  AUTHORS   Schnur E, Kessler N, Zherdev Y, Noah E, Scherf T, Ding FX,
            Rabinovich S, Arshava B, Kurbatska V, Leonciks A, Tsimanis A, Rosen
            O, Naider F and Anglister J.
  TITLE     NMR mapping of RANTES surfaces interacting with CCR5 using linked
            extracellular domains
  JOURNAL   FEBS J. 280 (9), 2068-2084 (2013)
   PUBMED   23480650
  REMARK    GeneRIF: N-terminal-CCR5 and extracellular loop 2 are the major
            contributors to CCR5 binding to RANTES.
REFERENCE   2  (bases 1 to 1319)
  AUTHORS   Kaneko Y, Masuko H, Sakamoto T, Iijima H, Naito T, Yatagai Y,
            Yamada H, Konno S, Nishimura M, Noguchi E and Hizawa N.
  TITLE     Asthma phenotypes in Japanese adults - their associations with the
            CCL5 and ADRB2 genotypes
  JOURNAL   Allergol Int 62 (1), 113-121 (2013)
   PUBMED   23267209
  REMARK    GeneRIF: The current cluster analysis identified meaningful adult
            asthma phenotypes linked to the functional CCL5 and ADRB2
            genotypes.
REFERENCE   3  (bases 1 to 1319)
  AUTHORS   Shin DY, Kim I, Kim JH, Lee YG, Kang EJ, Cho HJ, Lee KH, Kim HJ,
            Park EH, Lee JE, Bae JY, See CJ, Yoon SS, Park SS, Han KS, Park MH,
            Hong YC, Park S and Kim BK.
  TITLE     RANTES polymorphisms and the risk of graft-versus-host disease in
            human leukocyte antigen-matched sibling allogeneic hematopoietic
            stem cell transplantation
  JOURNAL   Acta Haematol. 129 (3), 137-145 (2013)
   PUBMED   23207898
  REMARK    GeneRIF: This study suggests that RANTES polymorphisms might be
            associated with the occurrence of acute GVHD rather than of chronic
            GVHD and also of relapse-free survival in the patients treated with
            allo-HSCT.
REFERENCE   4  (bases 1 to 1319)
  AUTHORS   Schlecker E, Stojanovic A, Eisen C, Quack C, Falk CS, Umansky V and
            Cerwenka A.
  TITLE     Tumor-infiltrating monocytic myeloid-derived suppressor cells
            mediate CCR5-dependent recruitment of regulatory T cells favoring
            tumor growth
  JOURNAL   J. Immunol. 189 (12), 5602-5611 (2012)
   PUBMED   23152559
  REMARK    GeneRIF: Tumor-infiltrating monocytic myeloid-derived suppressor
            cells produce high levels of transgenic CCR5 ligands CCL3, CCL4,
            and CCL5 and directly attract regulatory T cells (Tregs) in a
            CCR5-dependent manner.
REFERENCE   5  (bases 1 to 1319)
  AUTHORS   Cocchi F, DeVico AL, Garzino-Demo A, Arya SK, Gallo RC and Lusso P.
  TITLE     Identification of RANTES, MIP-1 alpha, and MIP-1 beta as the major
            HIV-suppressive factors produced by CD8+ T cells
  JOURNAL   Science 270 (5243), 1811-1815 (1995)
   PUBMED   8525373
REFERENCE   6  (bases 1 to 1319)
  AUTHORS   Nelson PJ, Kim HT, Manning WC, Goralski TJ and Krensky AM.
  TITLE     Genomic organization and transcriptional regulation of the RANTES
            chemokine gene
  JOURNAL   J. Immunol. 151 (5), 2601-2612 (1993)
   PUBMED   7689610
REFERENCE   7  (bases 1 to 1319)
  AUTHORS   Kameyoshi Y, Dorschner A, Mallet AI, Christophers E and Schroder
            JM.
  TITLE     Cytokine RANTES released by thrombin-stimulated platelets is a
            potent attractant for human eosinophils
  JOURNAL   J. Exp. Med. 176 (2), 587-592 (1992)
   PUBMED   1380064
REFERENCE   8  (bases 1 to 1319)
  AUTHORS   Schall TJ, Bacon K, Toy KJ and Goeddel DV.
  TITLE     Selective attraction of monocytes and T lymphocytes of the memory
            phenotype by cytokine RANTES
  JOURNAL   Nature 347 (6294), 669-671 (1990)
   PUBMED   1699135
REFERENCE   9  (bases 1 to 1319)
  AUTHORS   Donlon TA, Krensky AM, Wallace MR, Collins FS, Lovett M and
            Clayberger C.
  TITLE     Localization of a human T-cell-specific gene, RANTES (D17S136E), to
            chromosome 17q11.2-q12
  JOURNAL   Genomics 6 (3), 548-553 (1990)
   PUBMED   1691736
REFERENCE   10 (bases 1 to 1319)
  AUTHORS   Schall TJ, Jongstra J, Dyer BJ, Jorgensen J, Clayberger C, Davis MM
            and Krensky AM.
  TITLE     A human T cell-specific molecule is a member of a new gene family
  JOURNAL   J. Immunol. 141 (3), 1018-1025 (1988)
   PUBMED   2456327
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from CD695497.1, CR980938.1,
            CB111656.1, HY265548.1, AA443491.1, AW769950.1, GD136908.1 and
            BG272739.1.
            
            Summary: This gene is one of several chemokine genes clustered on
            the q-arm of chromosome 17. Chemokines form a superfamily of
            secreted proteins involved in immunoregulatory and inflammatory
            processes. The superfamily is divided into four subfamilies based
            on the arrangement of two N-terminal cysteine residues of the
            mature peptide. This chemokine, a member of the CC subfamily,
            functions as a chemoattractant for blood monocytes, memory T helper
            cells and eosinophils. It causes the release of histamine from
            basophils and activates eosinophils. This cytokine is one of the
            major HIV-suppressive factors produced by CD8+ cells. It functions
            as one of the natural ligands for the chemokine receptor chemokine
            (C-C motif) receptor 5 (CCR5), and it suppresses in vitro
            replication of the R5 strains of HIV-1, which use CCR5 as a
            coreceptor. Alternative splicing results in multiple transcript
            variants that encode different isoforms. [provided by RefSeq, Jul
            2013].
            
            Transcript Variant: This variant (2) uses an alternate exon in the
            3' coding region, which results in a frameshift, compared to
            variant 1. The encoded isoform (2) has a longer and distinct
            C-terminus, compared to isoform 1.
            
            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 :: CR980938.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           ERS025084, ERS025088 [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-82                CD695497.1         143-224
            83-650              CR980938.1         1-568
            651-838             CB111656.1         316-503
            839-886             HY265548.1         419-466             c
            887-927             HY265548.1         377-417             c
            928-1094            AA443491.1         204-370             c
            1095-1273           AW769950.1         43-221              c
            1274-1309           GD136908.1         7-42
            1310-1319           BG272739.1         1-10                c
FEATURES             Location/Qualifiers
     source          1..1319
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="17"
                     /map="17q12"
     gene            1..1319
                     /gene="CCL5"
                     /gene_synonym="D17S136E; eoCP; RANTES; SCYA5; SIS-delta;
                     SISd; TCP228"
                     /note="chemokine (C-C motif) ligand 5"
                     /db_xref="GeneID:6352"
                     /db_xref="HGNC:10632"
                     /db_xref="MIM:187011"
     exon            1..144
                     /gene="CCL5"
                     /gene_synonym="D17S136E; eoCP; RANTES; SCYA5; SIS-delta;
                     SISd; TCP228"
                     /inference="alignment:Splign:1.39.8"
     CDS             69..533
                     /gene="CCL5"
                     /gene_synonym="D17S136E; eoCP; RANTES; SCYA5; SIS-delta;
                     SISd; TCP228"
                     /note="isoform 2 precursor is encoded by transcript
                     variant 2; T-cell specific protein p288; regulated upon
                     activation, normally T-expressed, and presumably secreted;
                     beta-chemokine RANTES; small inducible cytokine subfamily
                     A (Cys-Cys), member 5; C-C motif chemokine 5; eosinophil
                     chemotactic cytokine"
                     /codon_start=1
                     /product="C-C motif chemokine 5 isoform 2 precursor"
                     /protein_id="NP_001265665.1"
                     /db_xref="GI:524563423"
                     /db_xref="GeneID:6352"
                     /db_xref="HGNC:10632"
                     /db_xref="MIM:187011"
                     /translation="
MKVSAAALAVILIATALCAPASASPYSSDTTPCCFAYIARPLPRAHIKEYFYTSGKCSNPAVVHRSRMPKREGQQVWQDFLYDSRLNKGKLCHPKEPPSVCQPREEMGSGVHQLFGDELGWRVLEPELTQICLFLLALVLAWEASPHYPTPPAP
"
     sig_peptide     69..137
                     /gene="CCL5"
                     /gene_synonym="D17S136E; eoCP; RANTES; SCYA5; SIS-delta;
                     SISd; TCP228"
                     /inference="COORDINATES: ab initio prediction:SignalP:4.0"
     exon            145..256
                     /gene="CCL5"
                     /gene_synonym="D17S136E; eoCP; RANTES; SCYA5; SIS-delta;
                     SISd; TCP228"
                     /inference="alignment:Splign:1.39.8"
     exon            257..338
                     /gene="CCL5"
                     /gene_synonym="D17S136E; eoCP; RANTES; SCYA5; SIS-delta;
                     SISd; TCP228"
                     /inference="alignment:Splign:1.39.8"
     exon            339..1312
                     /gene="CCL5"
                     /gene_synonym="D17S136E; eoCP; RANTES; SCYA5; SIS-delta;
                     SISd; TCP228"
                     /inference="alignment:Splign:1.39.8"
     polyA_signal    1287..1292
                     /gene="CCL5"
                     /gene_synonym="D17S136E; eoCP; RANTES; SCYA5; SIS-delta;
                     SISd; TCP228"
     polyA_site      1312
                     /gene="CCL5"
                     /gene_synonym="D17S136E; eoCP; RANTES; SCYA5; SIS-delta;
                     SISd; TCP228"
ORIGIN      
gctgcagaggattcctgcagaggatcaagacagcacgtggacctcgcacagcctctcccacaggtaccatgaaggtctccgcggcagccctcgctgtcatcctcattgctactgccctctgcgctcctgcatctgcctccccatattcctcggacaccacaccctgctgctttgcctacattgcccgcccactgccccgtgcccacatcaaggagtatttctacaccagtggcaagtgctccaacccagcagtcgtccacaggtcaaggatgccaaagagagagggacagcaagtctggcaggatttcctgtatgactcccggctgaacaagggcaagctttgtcacccgaaagaaccgccaagtgtgtgccaacccagagaagaaatgggttcgggagtacatcaactctttggagatgagctaggatggagagtccttgaacctgaacttacacaaatttgcctgtttctgcttgctcttgtcctagcttgggaggcttcccctcactatcctaccccacccgctccttgaagggcccagattctaccacacagcagcagttacaaaaaccttccccaggctggacgtggtggctcacgcctgtaatcccagcactttgggaggccaaggtgggtggatcacttgaggtcaggagttcgagaccagcctggccaacatgatgaaaccccatctctactaaaaatacaaaaaattagccgggcgtggtagcgggcgcctgtagtcccagctactcgggaggctgaggcaggagaatggcgtgaacccgggaggcggagcttgcagtgagccgagatcgcgccactgcactccagcctgggcgacagagcgagactccgtctcaaaaaaaaaaaaaaaaaaaaaaatacaaaaattagccgggcgtggtggcccacgcctgtaatcccagctactcgggaggctaaggcaggaaaattgtttgaacccaggaggtggaggctgcagtgagctgagattgtgccacttcactccagcctgggtgacaaagtgagactccgtcacaacaacaacaacaaaaagcttccccaactaaagcctagaagagcttctgaggcgctgctttgtcaaaaggaagtctctaggttctgagctctggctttgccttggctttgccagggctctgtgaccaggaaggaagtcagcatgcctctagaggcaaggaggggaggaacactgcactcttaagcttccgccgtctcaacccctcacaggagcttactggcaaacatgaaaaatcggcttaccattaaagttctcaatgcaaccataaaaaaaaaa
//

Annotations:

ANNOTATIONS from NCBI Entrez Gene (20130726):
            GeneID:6352 -> Molecular function: GO:0004435 [phosphatidylinositol phospholipase C activity] evidence: IDA
            GeneID:6352 -> Molecular function: GO:0004672 [protein kinase activity] evidence: IDA
            GeneID:6352 -> Molecular function: GO:0005515 [protein binding] evidence: IPI
            GeneID:6352 -> Molecular function: GO:0008009 [chemokine activity] evidence: IDA
            GeneID:6352 -> Molecular function: GO:0008009 [chemokine activity] evidence: NAS
            GeneID:6352 -> Molecular function: GO:0016004 [phospholipase activator activity] evidence: IDA
            GeneID:6352 -> Molecular function: GO:0030298 [receptor signaling protein tyrosine kinase activator activity] evidence: IDA
            GeneID:6352 -> Molecular function: GO:0031726 [CCR1 chemokine receptor binding] evidence: IDA
            GeneID:6352 -> Molecular function: GO:0031726 [CCR1 chemokine receptor binding] evidence: IPI
            GeneID:6352 -> Molecular function: GO:0031726 [CCR1 chemokine receptor binding] evidence: TAS
            GeneID:6352 -> Molecular function: GO:0031729 [CCR4 chemokine receptor binding] evidence: TAS
            GeneID:6352 -> Molecular function: GO:0031730 [CCR5 chemokine receptor binding] evidence: IPI
            GeneID:6352 -> Molecular function: GO:0042056 [chemoattractant activity] evidence: IDA
            GeneID:6352 -> Molecular function: GO:0042379 [chemokine receptor binding] evidence: IPI
            GeneID:6352 -> Molecular function: GO:0042803 [protein homodimerization activity] evidence: IDA
            GeneID:6352 -> Molecular function: GO:0043621 [protein self-association] evidence: IDA
            GeneID:6352 -> Molecular function: GO:0046817 [chemokine receptor antagonist activity] evidence: IDA
            GeneID:6352 -> Biological process: GO:0000165 [MAPK cascade] evidence: IMP
            GeneID:6352 -> Biological process: GO:0002407 [dendritic cell chemotaxis] evidence: TAS
            GeneID:6352 -> Biological process: GO:0002548 [monocyte chemotaxis] evidence: IC
            GeneID:6352 -> Biological process: GO:0002676 [regulation of chronic inflammatory response] evidence: TAS
            GeneID:6352 -> Biological process: GO:0006468 [protein phosphorylation] evidence: IDA
            GeneID:6352 -> Biological process: GO:0006816 [calcium ion transport] evidence: IDA
            GeneID:6352 -> Biological process: GO:0006874 [cellular calcium ion homeostasis] evidence: IDA
            GeneID:6352 -> Biological process: GO:0006887 [exocytosis] evidence: IDA
            GeneID:6352 -> Biological process: GO:0006935 [chemotaxis] evidence: NAS
            GeneID:6352 -> Biological process: GO:0006954 [inflammatory response] evidence: IDA
            GeneID:6352 -> Biological process: GO:0007159 [leukocyte cell-cell adhesion] evidence: IDA
            GeneID:6352 -> Biological process: GO:0007267 [cell-cell signaling] evidence: IDA
            GeneID:6352 -> Biological process: GO:0009615 [response to virus] evidence: TAS
            GeneID:6352 -> Biological process: GO:0009636 [response to toxic substance] evidence: IDA
            GeneID:6352 -> Biological process: GO:0010535 [positive regulation of activation of JAK2 kinase activity] evidence: TAS
            GeneID:6352 -> Biological process: GO:0010759 [positive regulation of macrophage chemotaxis] evidence: IDA
            GeneID:6352 -> Biological process: GO:0010820 [positive regulation of T cell chemotaxis] evidence: IDA
            GeneID:6352 -> Biological process: GO:0014068 [positive regulation of phosphatidylinositol 3-kinase cascade] evidence: IDA
            GeneID:6352 -> Biological process: GO:0014911 [positive regulation of smooth muscle cell migration] evidence: IDA
            GeneID:6352 -> Biological process: GO:0030335 [positive regulation of cell migration] evidence: IDA
            GeneID:6352 -> Biological process: GO:0031328 [positive regulation of cellular biosynthetic process] evidence: IDA
            GeneID:6352 -> Biological process: GO:0031584 [activation of phospholipase D activity] evidence: IDA
            GeneID:6352 -> Biological process: GO:0031663 [lipopolysaccharide-mediated signaling pathway] evidence: IDA
            GeneID:6352 -> Biological process: GO:0033634 [positive regulation of cell-cell adhesion mediated by integrin] evidence: IDA
            GeneID:6352 -> Biological process: GO:0034112 [positive regulation of homotypic cell-cell adhesion] evidence: IDA
            GeneID:6352 -> Biological process: GO:0042102 [positive regulation of T cell proliferation] evidence: IDA
            GeneID:6352 -> Biological process: GO:0042119 [neutrophil activation] evidence: IDA
            GeneID:6352 -> Biological process: GO:0042327 [positive regulation of phosphorylation] evidence: IDA
            GeneID:6352 -> Biological process: GO:0042531 [positive regulation of tyrosine phosphorylation of STAT protein] evidence: IDA
            GeneID:6352 -> Biological process: GO:0043491 [protein kinase B signaling cascade] evidence: IMP
            GeneID:6352 -> Biological process: GO:0043623 [cellular protein complex assembly] evidence: IDA
            GeneID:6352 -> Biological process: GO:0043922 [negative regulation by host of viral transcription] evidence: IDA
            GeneID:6352 -> Biological process: GO:0044344 [cellular response to fibroblast growth factor stimulus] evidence: IEP
            GeneID:6352 -> Biological process: GO:0045070 [positive regulation of viral genome replication] evidence: TAS
            GeneID:6352 -> Biological process: GO:0045071 [negative regulation of viral genome replication] evidence: IDA
            GeneID:6352 -> Biological process: GO:0045089 [positive regulation of innate immune response] evidence: TAS
            GeneID:6352 -> Biological process: GO:0045744 [negative regulation of G-protein coupled receptor protein signaling pathway] evidence: IDA
            GeneID:6352 -> Biological process: GO:0045785 [positive regulation of cell adhesion] evidence: IDA
            GeneID:6352 -> Biological process: GO:0045948 [positive regulation of translational initiation] evidence: NAS
            GeneID:6352 -> Biological process: GO:0046427 [positive regulation of JAK-STAT cascade] evidence: TAS
            GeneID:6352 -> Biological process: GO:0048245 [eosinophil chemotaxis] evidence: IDA
            GeneID:6352 -> Biological process: GO:0048246 [macrophage chemotaxis] evidence: TAS
            GeneID:6352 -> Biological process: GO:0048661 [positive regulation of smooth muscle cell proliferation] evidence: IDA
            GeneID:6352 -> Biological process: GO:0050863 [regulation of T cell activation] evidence: IDA
            GeneID:6352 -> Biological process: GO:0050918 [positive chemotaxis] evidence: IDA
            GeneID:6352 -> Biological process: GO:0051262 [protein tetramerization] evidence: IDA
            GeneID:6352 -> Biological process: GO:0051928 [positive regulation of calcium ion transport] evidence: IDA
            GeneID:6352 -> Biological process: GO:0070098 [chemokine-mediated signaling pathway] evidence: TAS
            GeneID:6352 -> Biological process: GO:0070100 [negative regulation of chemokine-mediated signaling pathway] evidence: IDA
            GeneID:6352 -> Biological process: GO:0070233 [negative regulation of T cell apoptotic process] evidence: IDA
            GeneID:6352 -> Biological process: GO:0070234 [positive regulation of T cell apoptotic process] evidence: IDA
            GeneID:6352 -> Biological process: GO:0071346 [cellular response to interferon-gamma] evidence: IEP
            GeneID:6352 -> Biological process: GO:0071347 [cellular response to interleukin-1] evidence: IEP
            GeneID:6352 -> Biological process: GO:0071356 [cellular response to tumor necrosis factor] evidence: IEP
            GeneID:6352 -> Biological process: GO:0071407 [cellular response to organic cyclic compound] evidence: IDA
            GeneID:6352 -> Biological process: GO:0090026 [positive regulation of monocyte chemotaxis] evidence: IDA
            GeneID:6352 -> Biological process: GO:2000110 [negative regulation of macrophage apoptotic process] evidence: IEA
            GeneID:6352 -> Biological process: GO:2000503 [positive regulation of natural killer cell chemotaxis] evidence: IDA
            GeneID:6352 -> Cellular component: GO:0005576 [extracellular region] evidence: TAS
            GeneID:6352 -> Cellular component: GO:0005615 [extracellular space] evidence: IEA
            GeneID:6352 -> Cellular component: GO:0005737 [cytoplasm] evidence: IEA

by @meso_cacase at DBCLS
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