LOCUS       NM_001001437             784 bp    mRNA    linear   PRI 02-APR-2024
DEFINITION  Homo sapiens C-C motif chemokine ligand 3 like 3 (CCL3L3), mRNA.
ACCESSION   NM_001001437
VERSION     NM_001001437.4
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 784)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   2  (bases 1 to 784)
  AUTHORS   Shrestha,S., Nyaku,M. and Edberg,J.C.
  TITLE     Variations in CCL3L gene cluster sequence and non-specific gene
            copy numbers
  JOURNAL   BMC Res Notes 3, 74 (2010)
   PUBMED   20233400
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 784)
  AUTHORS   Ryu,O.H., Choi,S.J., Firatli,E., Choi,S.W., Hart,P.S., Shen,R.F.,
            Wang,G., Wu,W.W. and Hart,T.C.
  TITLE     Proteolysis of macrophage inflammatory protein-1alpha isoforms
            LD78beta and LD78alpha by neutrophil-derived serine proteases
  JOURNAL   J Biol Chem 280 (17), 17415-17421 (2005)
   PUBMED   15728180
  REMARK    GeneRIF: severe periodontal tissue destruction in Papillon-Lefevre
            syndrome may be related to excess accumulation of LD78beta and
            LD78alpha and dysregulation of the microbial-induced inflammatory
            response in the periodontium
REFERENCE   4  (bases 1 to 784)
  AUTHORS   Bonecchi,R., Locati,M., Galliera,E., Vulcano,M., Sironi,M.,
            Fra,A.M., Gobbi,M., Vecchi,A., Sozzani,S., Haribabu,B., Van
            Damme,J. and Mantovani,A.
  TITLE     Differential recognition and scavenging of native and truncated
            macrophage-derived chemokine (macrophage-derived chemokine/CC
            chemokine ligand 22) by the D6 decoy receptor
  JOURNAL   J Immunol 172 (8), 4972-4976 (2004)
   PUBMED   15067078
REFERENCE   5  (bases 1 to 784)
  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   6  (bases 1 to 784)
  AUTHORS   Adams,M.D., Kerlavage,A.R., Fleischmann,R.D., Fuldner,R.A.,
            Bult,C.J., Lee,N.H., Kirkness,E.F., Weinstock,K.G., Gocayne,J.D.,
            White,O. et al.
  TITLE     Initial assessment of human gene diversity and expression patterns
            based upon 83 million nucleotides of cDNA sequence
  JOURNAL   Nature 377 (6547 Suppl), 3-174 (1995)
   PUBMED   7566098
REFERENCE   7  (bases 1 to 784)
  AUTHORS   Hirashima,M., Ono,T., Nakao,M., Nishi,H., Kimura,A., Nomiyama,H.,
            Hamada,F., Yoshida,M.C. and Shimada,K.
  TITLE     Nucleotide sequence of the third cytokine LD78 gene and mapping of
            all three LD78 gene loci to human chromosome 17
  JOURNAL   DNA Seq 3 (4), 203-212 (1992)
   PUBMED   1296815
REFERENCE   8  (bases 1 to 784)
  AUTHORS   Blum,S., Forsdyke,R.E. and Forsdyke,D.R.
  TITLE     Three human homologs of a murine gene encoding an inhibitor of stem
            cell proliferation
  JOURNAL   DNA Cell Biol 9 (8), 589-602 (1990)
   PUBMED   2271120
REFERENCE   9  (bases 1 to 784)
  AUTHORS   Nakao,M., Nomiyama,H. and Shimada,K.
  TITLE     Structures of human genes coding for cytokine LD78 and their
            expression
  JOURNAL   Mol Cell Biol 10 (7), 3646-3658 (1990)
   PUBMED   1694014
REFERENCE   10 (bases 1 to 784)
  AUTHORS   Irving,S.G., Zipfel,P.F., Balke,J., McBride,O.W., Morton,C.C.,
            Burd,P.R., Siebenlist,U. and Kelly,K.
  TITLE     Two inflammatory mediator cytokine genes are closely linked and
            variably amplified on chromosome 17q
  JOURNAL   Nucleic Acids Res 18 (11), 3261-3270 (1990)
   PUBMED   1972563
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC243829.3, AA380745.1,
            BC007783.2 and CF128666.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 22, 2018 this sequence version replaced NM_001001437.3.
            
            Summary: This gene is one of several cytokine genes that are
            clustered on the q-arm of chromosome 17. Cytokines are a family of
            secreted proteins that function in inflammatory and
            immunoregulatory processes. The protein encoded by this gene binds
            to several chemokine receptors, including chemokine binding protein
            2 and chemokine (C-C motif) receptor 5 (CCR5). CCR5 is a
            co-receptor for HIV, and binding of this protein to CCR5 inhibits
            HIV entry. The copy number of this gene varies among individuals,
            where most individuals have one to six copies, and a minority of
            individuals have zero or more than six copies. There are
            conflicting reports about copy number variation of this gene and
            its correlation to disease susceptibility.[provided by RefSeq, Apr
            2014].
            
            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 :: BC007783.2, SRR1163657.51183.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2163105 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000619989.1/ ENSP00000480558.1
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-10                AC243829.3         163984-163993       c
            11-15               AA380745.1         1-5
            16-207              BC007783.2         1-192
            208-357             CF128666.1         177-326
            358-784             BC007783.2         343-769
FEATURES             Location/Qualifiers
     source          1..784
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="17"
                     /map="17q12"
     gene            1..784
                     /gene="CCL3L3"
                     /gene_synonym="464.2; D17S1718; G0S19-2; LD78; LD78BETA;
                     SCYA3L; SCYA3L1"
                     /note="C-C motif chemokine ligand 3 like 3"
                     /db_xref="GeneID:414062"
                     /db_xref="HGNC:HGNC:30554"
                     /db_xref="MIM:609468"
     exon            1..161
                     /gene="CCL3L3"
                     /gene_synonym="464.2; D17S1718; G0S19-2; LD78; LD78BETA;
                     SCYA3L; SCYA3L1"
                     /inference="alignment:Splign:2.1.0"
     CDS             86..367
                     /gene="CCL3L3"
                     /gene_synonym="464.2; D17S1718; G0S19-2; LD78; LD78BETA;
                     SCYA3L; SCYA3L1"
                     /note="chemokine (C-C motif) ligand 3-like, centromeric;
                     small inducible cytokine A3-like 1; LD78-beta(1-70); G0/G1
                     switch regulatory protein 19-2; tonsillar lymphocyte LD78
                     beta protein; chemokine (C-C motif) ligand 3-like 3"
                     /codon_start=1
                     /product="C-C motif chemokine 3-like 1 precursor"
                     /protein_id="NP_001001437.2"
                     /db_xref="CCDS:CCDS32626.1"
                     /db_xref="GeneID:414062"
                     /db_xref="HGNC:HGNC:30554"
                     /db_xref="MIM:609468"
                     /translation="MQVSTAALAVLLCTMALCNQVLSAPLAADTPTACCFSYTSRQIP
                     QNFIADYFETSSQCSKPSVIFLTKRGRQVCADPSEEWVQKYVSDLELSA"
     exon            162..276
                     /gene="CCL3L3"
                     /gene_synonym="464.2; D17S1718; G0S19-2; LD78; LD78BETA;
                     SCYA3L; SCYA3L1"
                     /inference="alignment:Splign:2.1.0"
     exon            277..784
                     /gene="CCL3L3"
                     /gene_synonym="464.2; D17S1718; G0S19-2; LD78; LD78BETA;
                     SCYA3L; SCYA3L1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      758..763
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CCL3L3"
                     /gene_synonym="464.2; D17S1718; G0S19-2; LD78; LD78BETA;
                     SCYA3L; SCYA3L1"
                     /note="hexamer: AATAAA"
     polyA_site      784
                     /gene="CCL3L3"
                     /gene_synonym="464.2; D17S1718; G0S19-2; LD78; LD78BETA;
                     SCYA3L; SCYA3L1"
                     /note="major polyA site"
ORIGIN      
        1 agaaggacgc aggcagcaaa gagtagtcag tcccttcttg gctctgctga cactcgagcc
       61 cacattccat cacctgctcc caatcatgca ggtctccact gctgcccttg ccgtcctcct
      121 ctgcaccatg gctctctgca accaggtcct ctctgcacca cttgctgctg acacgccgac
      181 cgcctgctgc ttcagctaca cctcccgaca gattccacag aatttcatag ctgactactt
      241 tgagacgagc agccagtgct ccaagcccag tgtcatcttc ctaaccaaga gaggccggca
      301 ggtctgtgct gaccccagtg aggagtgggt ccagaaatac gtcagtgacc tggagctgag
      361 tgcctgaggg gtccagaagc ttcgaggccc agcgacctca gtgggcccag tggggaggag
      421 caggagcctg agccttggga acatgcgtgt gacctccaca gctacctctt ctatggactg
      481 gttattgcca aacagccaca ctgtgggact cttcttaact taaattttaa tttatttata
      541 ctatttagtt tttataattt atttttgatt tcacagtgtg tttgtgattg tttgctctga
      601 gagttccccc tgtcccctcc accttccctc acagtgtgtc tggtgacaac cgagtggctg
      661 tcatcggcct gtgtaggcag tcatggcacc aaagccacca gactgacaaa tgtgtatcag
      721 atgcttttgt tcagggctgt gatcggcctg gggaaataat aaagatgttc ttttaaacgg
      781 taaa
//
