LOCUS       NM_138790               1905 bp    mRNA    linear   PRI 16-FEB-2025
DEFINITION  Homo sapiens phospholipase D family member 4 (PLD4), transcript
            variant 2, mRNA.
ACCESSION   NM_138790
VERSION     NM_138790.5
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   Yasaka,K., Yamazaki,T., Sato,H., Shirai,T., Cho,M., Ishida,K.,
            Ito,K., Tanaka,T., Ogasawara,K., Harigae,H., Ishii,T. and Fujii,H.
  TITLE     Phospholipase D4 as a signature of toll-like receptor 7 or 9
            signaling is expressed on blastic T-bet + B cells in systemic lupus
            erythematosus
  JOURNAL   Arthritis Res Ther 25 (1), 200 (2023)
   PUBMED   37840148
  REMARK    GeneRIF: Phospholipase D4 as a signature of toll-like receptor 7 or
            9 signaling is expressed on blastic T-bet + B cells in systemic
            lupus erythematosus.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1905)
  AUTHORS   Akizuki,S., Ishigaki,K., Kochi,Y., Law,S.M., Matsuo,K., Ohmura,K.,
            Suzuki,A., Nakayama,M., Iizuka,Y., Koseki,H., Ohara,O., Hirata,J.,
            Kamatani,Y., Matsuda,F., Sumida,T., Yamamoto,K., Okada,Y.,
            Mimori,T. and Terao,C.
  TITLE     PLD4 is a genetic determinant to systemic lupus erythematosus and
            involved in murine autoimmune phenotypes
  JOURNAL   Ann Rheum Dis 78 (4), 509-518 (2019)
   PUBMED   30679154
  REMARK    GeneRIF: PLD4 is a genetic determinant to systemic lupus
            erythematosus.
REFERENCE   3  (bases 1 to 1905)
  AUTHORS   Gao,L., Zhou,Y., Zhou,S.X., Yu,X.J., Xu,J.M., Zuo,L., Luo,Y.H. and
            Li,X.A.
  TITLE     PLD4 promotes M1 macrophages to perform antitumor effects in colon
            cancer cells
  JOURNAL   Oncol Rep 37 (1), 408-416 (2017)
   PUBMED   27840999
  REMARK    GeneRIF: PLD4 expression in colon cancer tissues
REFERENCE   4  (bases 1 to 1905)
  AUTHORS   Okada,Y., Wu,D., Trynka,G., Raj,T., Terao,C., Ikari,K., Kochi,Y.,
            Ohmura,K., Suzuki,A., Yoshida,S., Graham,R.R., Manoharan,A.,
            Ortmann,W., Bhangale,T., Denny,J.C., Carroll,R.J., Eyler,A.E.,
            Greenberg,J.D., Kremer,J.M., Pappas,D.A., Jiang,L., Yin,J., Ye,L.,
            Su,D.F., Yang,J., Xie,G., Keystone,E., Westra,H.J., Esko,T.,
            Metspalu,A., Zhou,X., Gupta,N., Mirel,D., Stahl,E.A., Diogo,D.,
            Cui,J., Liao,K., Guo,M.H., Myouzen,K., Kawaguchi,T., Coenen,M.J.,
            van Riel,P.L., van de Laar,M.A., Guchelaar,H.J., Huizinga,T.W.,
            Dieude,P., Mariette,X., Bridges,S.L. Jr., Zhernakova,A., Toes,R.E.,
            Tak,P.P., Miceli-Richard,C., Bang,S.Y., Lee,H.S., Martin,J.,
            Gonzalez-Gay,M.A., Rodriguez-Rodriguez,L., Rantapaa-Dahlqvist,S.,
            Arlestig,L., Choi,H.K., Kamatani,Y., Galan,P., Lathrop,M., Eyre,S.,
            Bowes,J., Barton,A., de Vries,N., Moreland,L.W., Criswell,L.A.,
            Karlson,E.W., Taniguchi,A., Yamada,R., Kubo,M., Liu,J.S., Bae,S.C.,
            Worthington,J., Padyukov,L., Klareskog,L., Gregersen,P.K.,
            Raychaudhuri,S., Stranger,B.E., De Jager,P.L., Franke,L.,
            Visscher,P.M., Brown,M.A., Yamanaka,H., Mimori,T., Takahashi,A.,
            Xu,H., Behrens,T.W., Siminovitch,K.A., Momohara,S., Matsuda,F.,
            Yamamoto,K. and Plenge,R.M.
  CONSRTM   RACI consortium; GARNET consortium
  TITLE     Genetics of rheumatoid arthritis contributes to biology and drug
            discovery
  JOURNAL   Nature 506 (7488), 376-381 (2014)
   PUBMED   24390342
REFERENCE   5  (bases 1 to 1905)
  AUTHORS   Terao,C., Ohmura,K., Kawaguchi,Y., Nishimoto,T., Kawasaki,A.,
            Takehara,K., Furukawa,H., Kochi,Y., Ota,Y., Ikari,K., Sato,S.,
            Tohma,S., Yamada,R., Yamamoto,K., Kubo,M., Yamanaka,H., Kuwana,M.,
            Tsuchiya,N., Matsuda,F. and Mimori,T.
  TITLE     PLD4 as a novel susceptibility gene for systemic sclerosis in a
            Japanese population
  JOURNAL   Arthritis Rheum 65 (2), 472-480 (2013)
   PUBMED   23124809
  REMARK    GeneRIF: We determined that PLD4 is a novel susceptibility gene for
            sysetmic sclerosis in Japanese, thus confirming the involvement of
            PLD4 in autoimmunity.
REFERENCE   6  (bases 1 to 1905)
  AUTHORS   Okada,Y., Terao,C., Ikari,K., Kochi,Y., Ohmura,K., Suzuki,A.,
            Kawaguchi,T., Stahl,E.A., Kurreeman,F.A., Nishida,N., Ohmiya,H.,
            Myouzen,K., Takahashi,M., Sawada,T., Nishioka,Y., Yukioka,M.,
            Matsubara,T., Wakitani,S., Teshima,R., Tohma,S., Takasugi,K.,
            Shimada,K., Murasawa,A., Honjo,S., Matsuo,K., Tanaka,H., Tajima,K.,
            Suzuki,T., Iwamoto,T., Kawamura,Y., Tanii,H., Okazaki,Y.,
            Sasaki,T., Gregersen,P.K., Padyukov,L., Worthington,J.,
            Siminovitch,K.A., Lathrop,M., Taniguchi,A., Takahashi,A.,
            Tokunaga,K., Kubo,M., Nakamura,Y., Kamatani,N., Mimori,T.,
            Plenge,R.M., Yamanaka,H., Momohara,S., Yamada,R., Matsuda,F. and
            Yamamoto,K.
  TITLE     Meta-analysis identifies nine new loci associated with rheumatoid
            arthritis in the Japanese population
  JOURNAL   Nat Genet 44 (5), 511-516 (2012)
   PUBMED   22446963
  REMARK    Publication Status: Online-Only
REFERENCE   7  (bases 1 to 1905)
  AUTHORS   Tao,W.A., Wollscheid,B., O'Brien,R., Eng,J.K., Li,X.J.,
            Bodenmiller,B., Watts,J.D., Hood,L. and Aebersold,R.
  TITLE     Quantitative phosphoproteome analysis using a dendrimer conjugation
            chemistry and tandem mass spectrometry
  JOURNAL   Nat Methods 2 (8), 591-598 (2005)
   PUBMED   16094384
REFERENCE   8  (bases 1 to 1905)
  AUTHORS   Clark,H.F., Gurney,A.L., Abaya,E., Baker,K., Baldwin,D., Brush,J.,
            Chen,J., Chow,B., Chui,C., Crowley,C., Currell,B., Deuel,B.,
            Dowd,P., Eaton,D., Foster,J., Grimaldi,C., Gu,Q., Hass,P.E.,
            Heldens,S., Huang,A., Kim,H.S., Klimowski,L., Jin,Y., Johnson,S.,
            Lee,J., Lewis,L., Liao,D., Mark,M., Robbie,E., Sanchez,C.,
            Schoenfeld,J., Seshagiri,S., Simmons,L., Singh,J., Smith,V.,
            Stinson,J., Vagts,A., Vandlen,R., Watanabe,C., Wieand,D., Woods,K.,
            Xie,M.H., Yansura,D., Yi,S., Yu,G., Yuan,J., Zhang,M., Zhang,Z.,
            Goddard,A., Wood,W.I., Godowski,P. and Gray,A.
  TITLE     The secreted protein discovery initiative (SPDI), a large-scale
            effort to identify novel human secreted and transmembrane proteins:
            a bioinformatics assessment
  JOURNAL   Genome Res 13 (10), 2265-2270 (2003)
   PUBMED   12975309
  REMARK    Erratum:[Genome Res. 2003 Dec;13(12):2759]
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AY358843.1.
            
            On Dec 4, 2019 this sequence version replaced NM_138790.4.
            
            Transcript Variant: This variant (2) differs in the 5' UTR and uses
            an alternate splice site in the 5' coding region that results in
            use of a downstream start codon compared to variant 1. It encodes
            isoform 2, which is shorter than isoform 1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AY358843.1, BC015003.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1968540
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000392593.9/ ENSP00000376372.5
            RefSeq Select criteria :: based on manual assertion, conservation,
                                      expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1905              AY358843.1         30-1934
FEATURES             Location/Qualifiers
     source          1..1905
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="14"
                     /map="14q32.33"
     gene            1..1905
                     /gene="PLD4"
                     /gene_synonym="C14orf175"
                     /note="phospholipase D family member 4"
                     /db_xref="GeneID:122618"
                     /db_xref="HGNC:HGNC:23792"
                     /db_xref="MIM:618488"
     exon            1..112
                     /gene="PLD4"
                     /gene_synonym="C14orf175"
                     /inference="alignment:Splign:2.1.0"
     CDS             113..1633
                     /gene="PLD4"
                     /gene_synonym="C14orf175"
                     /EC_number="3.1.16.1"
                     /note="isoform 2 is encoded by transcript variant 2;
                     choline phosphatase 4; phosphatidylcholine-hydrolyzing
                     phospholipase D4; PLD 4; 5'-3' exonuclease PLD4;
                     (S,S)-bis(monoacylglycero)phosphate synthase PLD4"
                     /codon_start=1
                     /product="5'-3' exonuclease PLD4 isoform 2"
                     /protein_id="NP_620145.2"
                     /db_xref="CCDS:CCDS9995.2"
                     /db_xref="GeneID:122618"
                     /db_xref="HGNC:HGNC:23792"
                     /db_xref="MIM:618488"
                     /translation="MLKPLWKAAVAPTWPCSMPPRRPWDREAGTLQVLGALAVLWLGS
                     VALICLLWQVPRPPTWGQVQPKDVPRSWEHGSSPAWEPLEAEARQQRDSCQLVLVESI
                     PQDLPSAAGSPSAQPLGQAWLQLLDTAQESVHVASYYWSLTGPDIGVNDSSSQLGEAL
                     LQKLQQLLGRNISLAVATSSPTLARTSTDLQVLAARGAHVRQVPMGRLTRGVLHSKFW
                     VVDGRHIYMGSANMDWRSLTQVKELGAVIYNCSHLAQDLEKTFQTYWVLGVPKAVLPK
                     TWPQNFSSHFNRFQPFHGLFDGVPTTAYFSASPPALCPQGRTRDLEALLAVMGSAQEF
                     IYASVMEYFPTTRFSHPPRYWPVLDNALRAAAFGKGVRVRLLVGCGLNTDPTMFPYLR
                     SLQALSNPAANVSVDVKVFIVPVGNHSNIPFSRVNHSKFMVTEKAAYIGTSNWSEDYF
                     SSTAGVGLVVTQSPGAQPAGATVQEQLRQLFERDWSSRYAVGLDGQAPGQDCVWQG"
     exon            113..202
                     /gene="PLD4"
                     /gene_synonym="C14orf175"
                     /inference="alignment:Splign:2.1.0"
     exon            203..396
                     /gene="PLD4"
                     /gene_synonym="C14orf175"
                     /inference="alignment:Splign:2.1.0"
     exon            397..580
                     /gene="PLD4"
                     /gene_synonym="C14orf175"
                     /inference="alignment:Splign:2.1.0"
     exon            581..701
                     /gene="PLD4"
                     /gene_synonym="C14orf175"
                     /inference="alignment:Splign:2.1.0"
     exon            702..829
                     /gene="PLD4"
                     /gene_synonym="C14orf175"
                     /inference="alignment:Splign:2.1.0"
     exon            830..1030
                     /gene="PLD4"
                     /gene_synonym="C14orf175"
                     /inference="alignment:Splign:2.1.0"
     exon            1031..1170
                     /gene="PLD4"
                     /gene_synonym="C14orf175"
                     /inference="alignment:Splign:2.1.0"
     exon            1171..1336
                     /gene="PLD4"
                     /gene_synonym="C14orf175"
                     /inference="alignment:Splign:2.1.0"
     exon            1337..1433
                     /gene="PLD4"
                     /gene_synonym="C14orf175"
                     /inference="alignment:Splign:2.1.0"
     exon            1434..1905
                     /gene="PLD4"
                     /gene_synonym="C14orf175"
                     /inference="alignment:Splign:2.1.0"
     polyA_site      1905
                     /gene="PLD4"
                     /gene_synonym="C14orf175"
                     /note="major polyA site"
ORIGIN      
        1 agagaagagg aggttggtgt ggagcacagg cagcaccgag cctgccccgt gagctgaggg
       61 cctgcagtct gcggctggaa tcaggataga caccaaggca ggacccccag agatgctgaa
      121 gcctctttgg aaagcagcag tggcccccac atggccatgc tccatgccgc cccgccgccc
      181 gtgggacaga gaggctggca cgttgcaggt cctgggagcg ctggctgtgc tgtggctggg
      241 ctccgtggct cttatctgcc tcctgtggca agtgccccgt cctcccacct ggggccaggt
      301 gcagcccaag gacgtgccca ggtcctggga gcatggctcc agcccagctt gggagcccct
      361 ggaagcagag gccaggcagc agagggactc ctgccagctt gtccttgtgg aaagcatccc
      421 ccaggacctg ccatctgcag ccggcagccc ctctgcccag cctctgggcc aggcctggct
      481 gcagctgctg gacactgccc aggagagcgt ccacgtggct tcatactact ggtccctcac
      541 agggcctgac atcggggtca acgactcgtc ttcccagctg ggagaggctc ttctgcagaa
      601 gctgcagcag ctgctgggca ggaacatttc cctggctgtg gccaccagca gcccgacact
      661 ggccaggaca tccaccgacc tgcaggttct ggctgcccga ggtgcccatg tacgacaggt
      721 gcccatgggg cggctcacca ggggtgtttt gcactccaaa ttctgggttg tggatggacg
      781 gcacatatac atgggcagtg ccaacatgga ctggcggtct ctgacgcagg tgaaggagct
      841 tggcgctgtc atctataact gcagccacct ggcccaagac ctggagaaga ccttccagac
      901 ctactgggta ctgggggtgc ccaaggctgt cctccccaaa acctggcctc agaacttctc
      961 atctcacttc aaccgtttcc agcccttcca cggcctcttt gatggggtgc ccaccactgc
     1021 ctacttctca gcgtcgccac cagcactctg tccccagggc cgcacccggg acctggaggc
     1081 gctgctggcg gtgatgggga gcgcccagga gttcatctat gcctccgtga tggagtattt
     1141 ccccaccacg cgcttcagcc accccccgag gtactggccg gtgctggaca acgcgctgcg
     1201 ggcggcagcc ttcggcaagg gcgtgcgcgt gcgcctgctg gtcggctgcg gactcaacac
     1261 ggaccccacc atgttcccct acctgcggtc cctgcaggcg ctcagcaacc ccgcggccaa
     1321 cgtctctgtg gacgtgaaag tcttcatcgt gccggtgggg aaccattcca acatcccatt
     1381 cagcagggtg aaccacagca agttcatggt cacggagaag gcagcctaca taggcacctc
     1441 caactggtcg gaggattact tcagcagcac ggcgggggtg ggcttggtgg tcacccagag
     1501 ccctggcgcg cagcccgcgg gggccacggt gcaggagcag ctgcggcagc tctttgagcg
     1561 ggactggagt tcgcgctacg ccgtcggcct ggacggacag gctccgggcc aggactgcgt
     1621 ttggcagggc tgaggggggc ctctttttct ctcggcgacc ccgccccgca cgcgccctcc
     1681 cctctgaccc cggcctgggc ttcagccgct tcctcccgca agcagcccgg gtccgcactg
     1741 cgccaggagc cgcctgcgac cgcccgggcg tcgcaaaccg cccgcctgct ctctgatttc
     1801 cgagtccagc cccccctgag ccccacctcc tccagggagc cctccaggaa gccccttccc
     1861 tgactcctgg cccacaggcc aggcctaaaa aaaactcgtg gcttc
//
