LOCUS       NM_001328608            1525 bp    mRNA    linear   PRI 09-JUN-2024
DEFINITION  Homo sapiens pentraxin 4 (PTX4), transcript variant 1, mRNA.
ACCESSION   NM_001328608
VERSION     NM_001328608.2
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 1525)
  AUTHORS   Estrada,K., Styrkarsdottir,U., Evangelou,E., Hsu,Y.H., Duncan,E.L.,
            Ntzani,E.E., Oei,L., Albagha,O.M., Amin,N., Kemp,J.P., Koller,D.L.,
            Li,G., Liu,C.T., Minster,R.L., Moayyeri,A., Vandenput,L.,
            Willner,D., Xiao,S.M., Yerges-Armstrong,L.M., Zheng,H.F.,
            Alonso,N., Eriksson,J., Kammerer,C.M., Kaptoge,S.K., Leo,P.J.,
            Thorleifsson,G., Wilson,S.G., Wilson,J.F., Aalto,V., Alen,M.,
            Aragaki,A.K., Aspelund,T., Center,J.R., Dailiana,Z., Duggan,D.J.,
            Garcia,M., Garcia-Giralt,N., Giroux,S., Hallmans,G., Hocking,L.J.,
            Husted,L.B., Jameson,K.A., Khusainova,R., Kim,G.S., Kooperberg,C.,
            Koromila,T., Kruk,M., Laaksonen,M., Lacroix,A.Z., Lee,S.H.,
            Leung,P.C., Lewis,J.R., Masi,L., Mencej-Bedrac,S., Nguyen,T.V.,
            Nogues,X., Patel,M.S., Prezelj,J., Rose,L.M., Scollen,S.,
            Siggeirsdottir,K., Smith,A.V., Svensson,O., Trompet,S., Trummer,O.,
            van Schoor,N.M., Woo,J., Zhu,K., Balcells,S., Brandi,M.L.,
            Buckley,B.M., Cheng,S., Christiansen,C., Cooper,C., Dedoussis,G.,
            Ford,I., Frost,M., Goltzman,D., Gonzalez-Macias,J., Kahonen,M.,
            Karlsson,M., Khusnutdinova,E., Koh,J.M., Kollia,P., Langdahl,B.L.,
            Leslie,W.D., Lips,P., Ljunggren,O., Lorenc,R.S., Marc,J.,
            Mellstrom,D., Obermayer-Pietsch,B., Olmos,J.M.,
            Pettersson-Kymmer,U., Reid,D.M., Riancho,J.A., Ridker,P.M.,
            Rousseau,F., Slagboom,P.E., Tang,N.L., Urreizti,R., Van Hul,W.,
            Viikari,J., Zarrabeitia,M.T., Aulchenko,Y.S.,
            Castano-Betancourt,M., Grundberg,E., Herrera,L., Ingvarsson,T.,
            Johannsdottir,H., Kwan,T., Li,R., Luben,R., Medina-Gomez,C.,
            Palsson,S.T., Reppe,S., Rotter,J.I., Sigurdsson,G., van Meurs,J.B.,
            Verlaan,D., Williams,F.M., Wood,A.R., Zhou,Y., Gautvik,K.M.,
            Pastinen,T., Raychaudhuri,S., Cauley,J.A., Chasman,D.I.,
            Clark,G.R., Cummings,S.R., Danoy,P., Dennison,E.M., Eastell,R.,
            Eisman,J.A., Gudnason,V., Hofman,A., Jackson,R.D., Jones,G.,
            Jukema,J.W., Khaw,K.T., Lehtimaki,T., Liu,Y., Lorentzon,M.,
            McCloskey,E., Mitchell,B.D., Nandakumar,K., Nicholson,G.C.,
            Oostra,B.A., Peacock,M., Pols,H.A., Prince,R.L., Raitakari,O.,
            Reid,I.R., Robbins,J., Sambrook,P.N., Sham,P.C., Shuldiner,A.R.,
            Tylavsky,F.A., van Duijn,C.M., Wareham,N.J., Cupples,L.A.,
            Econs,M.J., Evans,D.M., Harris,T.B., Kung,A.W., Psaty,B.M.,
            Reeve,J., Spector,T.D., Streeten,E.A., Zillikens,M.C.,
            Thorsteinsdottir,U., Ohlsson,C., Karasik,D., Richards,J.B.,
            Brown,M.A., Stefansson,K., Uitterlinden,A.G., Ralston,S.H.,
            Ioannidis,J.P., Kiel,D.P. and Rivadeneira,F.
  TITLE     Genome-wide meta-analysis identifies 56 bone mineral density loci
            and reveals 14 loci associated with risk of fracture
  JOURNAL   Nat Genet 44 (5), 491-501 (2012)
   PUBMED   22504420
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1525)
  AUTHORS   Martinez de la Torre,Y., Fabbri,M., Jaillon,S., Bastone,A.,
            Nebuloni,M., Vecchi,A., Mantovani,A. and Garlanda,C.
  TITLE     Evolution of the pentraxin family: the new entry PTX4
  JOURNAL   J Immunol 184 (9), 5055-5064 (2010)
   PUBMED   20357257
  REMARK    GeneRIF: Study of long pentraxin PTX4 in silico and by transcript
            expression shows that the gene clusters alone in phylogenetic
            analysis, is well conserved from mammals to lower vertebrates, and
            has a unique pattern of messenger RNA expression.
REFERENCE   3  (bases 1 to 1525)
  AUTHORS   Daniels,R.J., Peden,J.F., Lloyd,C., Horsley,S.W., Clark,K.,
            Tufarelli,C., Kearney,L., Buckle,V.J., Doggett,N.A., Flint,J. and
            Higgs,D.R.
  TITLE     Sequence, structure and pathology of the fully annotated terminal 2
            Mb of the short arm of human chromosome 16
  JOURNAL   Hum Mol Genet 10 (4), 339-352 (2001)
   PUBMED   11157797
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL031705.25.
            
            On Jan 28, 2020 this sequence version replaced NM_001328608.1.
            
            Summary: This gene belongs to the pentraxin superfamily, whose
            members encode highly conserved multifunctional proteins. The
            encoded protein, like other members of this family, contains a
            conserved pentraxin domain at the C-terminus. The highest levels of
            expression of the protein were observed in bone marrow, small
            intestine and testes. [provided by RefSeq, Jun 2016].
            
            Transcript Variant: This variant (1) encodes the longer isoform
            (1). This transcript is based on data in PMID:20357257.
            
            ##Evidence-Data-START##
            RNAseq introns :: single sample supports all introns SAMN03465414
                              [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000447419.7/ ENSP00000445277.2
            RefSeq Select criteria :: based on manual assertion, conservation,
                                      expression, longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-176               AL031705.25        16774-16949         c
            177-831             AL031705.25        15321-15975         c
            832-1525            AL031705.25        13891-14584         c
FEATURES             Location/Qualifiers
     source          1..1525
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="16"
                     /map="16p13.3"
     gene            1..1525
                     /gene="PTX4"
                     /gene_synonym="C16orf38"
                     /note="pentraxin 4"
                     /db_xref="GeneID:390667"
                     /db_xref="HGNC:HGNC:14171"
                     /db_xref="MIM:613442"
     exon            1..176
                     /gene="PTX4"
                     /gene_synonym="C16orf38"
                     /inference="alignment:Splign:2.1.0"
     CDS             36..1472
                     /gene="PTX4"
                     /gene_synonym="C16orf38"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; neuronal pentraxin-like protein C16orf38;
                     pentraxin 4, long; long pentraxin 4"
                     /codon_start=1
                     /product="pentraxin-4 isoform 1 precursor"
                     /protein_id="NP_001315537.1"
                     /db_xref="CCDS:CCDS86492.1"
                     /db_xref="GeneID:390667"
                     /db_xref="HGNC:HGNC:14171"
                     /db_xref="MIM:613442"
                     /translation="MGCSWRKTLSFFLVFVPIYLHGASSQEAAPVGPRKPFFERLRRL
                     EEQFRRFQEVTWTHLQNIASNYNVSYNVDVRFRSLAEESQAVAQAVNRSQASVQGELA
                     QLKAWVRKLQRRGRKVDTRLRALDLTLGERSQQRARERKAHKAQRDALQDSLARLEGL
                     VHSQGARLAALEGRLPVAHPGTAALGPALVPTPTQPEELGPTSLKLQRDRQELRAASE
                     HRGPPQDSSAPLQGRREPPASGSHRVLSGTAPKDPRQQAWSPQVPGEICGVGPTLVFP
                     NASTRNVVFLSPGFVTALRALSFCSWVRTASGRLGTLLSYATEDNDNKLVLHGRDSLL
                     PGSIHFVIGDPAFRELPLQLLLDGQWHHICVIWTSTQGRYWLHVDRRLVATGSRFREG
                     YEIPPGGSLVLGQEQDSVGGGFDSSEAFVGSMSGLAIWDRALVPGEVANLAIGKEFPT
                     GAILTLANAALAGGFVQGANCTCLERCP"
     exon            177..831
                     /gene="PTX4"
                     /gene_synonym="C16orf38"
                     /inference="alignment:Splign:2.1.0"
     exon            832..1525
                     /gene="PTX4"
                     /gene_synonym="C16orf38"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 ggagggagac tgctggggcc ttgccgtctc tccggatggg ttgctcgtgg aggaagacct
       61 tgtctttctt ccttgttttt gtgcctatat atctacatgg ggcttcatcg caggaagccg
      121 ccccagtggg gcccaggaaa ccgtttttcg agaggctccg taggctggag gaacagttcc
      181 ggagattcca ggaggtgacc tggacacacc tgcagaacat cgccagcaac tacaacgtgt
      241 cctacaacgt tgacgtccgg ttccggagcc tggcggaaga gagccaggct gtggctcagg
      301 cagtcaaccg gtcacaggcc tcggtgcagg gggagctggc gcagctcaag gcctgggtga
      361 ggaagctgca gcgccgaggc cggaaagtag acacgcggct gcgggccttg gacctcaccc
      421 tgggcgagag gagccagcag cgggcccggg aaaggaaggc acacaaggcc cagagggacg
      481 ccctgcagga ctcactggca cgcctggagg gcctcgtcca cagccagggc gccaggctgg
      541 ctgctctgga ggggcggctg cccgtggccc accctggcac tgcagccctc gggccggccc
      601 tggtcccaac cccaacccag cctgaggagc tgggcccgac ctccctgaag cttcagaggg
      661 acaggcagga gctccgagct gcctctgagc acaggggccc cccacaggac tcctcggccc
      721 ctctccaagg gaggcgggag cctccagcct caggcagcca tcgggtactc agtgggactg
      781 ccccaaaaga ccctcggcag caggcatggt ccccccaggt gccaggagag atttgcggcg
      841 tgggccccac cctcgttttc ccaaacgcct ccaccaggaa cgtggtcttc ctcagccctg
      901 gtttcgtcac tgccctgcga gccctgtcct tctgcagctg ggtccgcacg gcctccggcc
      961 gcctgggcac cctcctgtcc tacgccaccg aggacaatga caacaagctg gtgctgcacg
     1021 gccgagactc cctgctgccc ggatccatcc acttcgtgat cggggacccg gccttcaggg
     1081 agctgccctt gcagctgctg ctggacggcc agtggcacca catctgtgtc atctggacgt
     1141 ccacccaggg caggtactgg ctccacgtgg atcgcaggct ggtggccacc ggctcccgct
     1201 tcagggaggg ctatgagatc ccccccggag ggtccctcgt gctgggccag gaacaagaca
     1261 gcgtgggggg cggattcgac agctccgagg ccttcgtggg gagcatgtct ggcttggcta
     1321 tctgggatcg ggcgctggtt cccggggaag ttgcaaacct tgccatcggg aaagagttcc
     1381 cgacaggtgc catcctgacg ctggccaatg ctgcactagc aggcggattt gtgcaggggg
     1441 ccaactgcac ctgcctggaa cgctgtccct gaggccgagc cgcacggggg ctgaggccag
     1501 caagggcagc atgcccccat ccaca
//
