LOCUS       NM_058170               3165 bp    mRNA    linear   PRI 21-SEP-2024
DEFINITION  Homo sapiens olfactomedin 3 (OLFM3), transcript variant 2, mRNA.
ACCESSION   NM_058170 XM_088951
VERSION     NM_058170.4
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 3165)
  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 3165)
  AUTHORS   Fragoza,R., Das,J., Wierbowski,S.D., Liang,J., Tran,T.N., Liang,S.,
            Beltran,J.F., Rivera-Erick,C.A., Ye,K., Wang,T.Y., Yao,L., Mort,M.,
            Stenson,P.D., Cooper,D.N., Wei,X., Keinan,A., Schimenti,J.C.,
            Clark,A.G. and Yu,H.
  TITLE     Extensive disruption of protein interactions by genetic variants
            across the allele frequency spectrum in human populations
  JOURNAL   Nat Commun 10 (1), 4141 (2019)
   PUBMED   31515488
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3165)
  AUTHORS   Perry,J.R., Day,F., Elks,C.E., Sulem,P., Thompson,D.J.,
            Ferreira,T., He,C., Chasman,D.I., Esko,T., Thorleifsson,G.,
            Albrecht,E., Ang,W.Q., Corre,T., Cousminer,D.L., Feenstra,B.,
            Franceschini,N., Ganna,A., Johnson,A.D., Kjellqvist,S.,
            Lunetta,K.L., McMahon,G., Nolte,I.M., Paternoster,L., Porcu,E.,
            Smith,A.V., Stolk,L., Teumer,A., Tsernikova,N., Tikkanen,E.,
            Ulivi,S., Wagner,E.K., Amin,N., Bierut,L.J., Byrne,E.M.,
            Hottenga,J.J., Koller,D.L., Mangino,M., Pers,T.H.,
            Yerges-Armstrong,L.M., Zhao,J.H., Andrulis,I.L., Anton-Culver,H.,
            Atsma,F., Bandinelli,S., Beckmann,M.W., Benitez,J., Blomqvist,C.,
            Bojesen,S.E., Bolla,M.K., Bonanni,B., Brauch,H., Brenner,H.,
            Buring,J.E., Chang-Claude,J., Chanock,S., Chen,J.,
            Chenevix-Trench,G., Collee,J.M., Couch,F.J., Couper,D.,
            Coveillo,A.D., Cox,A., Czene,K., D'adamo,A.P., Smith,G.D., De
            Vivo,I., Demerath,E.W., Dennis,J., Devilee,P., Dieffenbach,A.K.,
            Dunning,A.M., Eiriksdottir,G., Eriksson,J.G., Fasching,P.A.,
            Ferrucci,L., Flesch-Janys,D., Flyger,H., Foroud,T., Franke,L.,
            Garcia,M.E., Garcia-Closas,M., Geller,F., de Geus,E.E., Giles,G.G.,
            Gudbjartsson,D.F., Gudnason,V., Guenel,P., Guo,S., Hall,P.,
            Hamann,U., Haring,R., Hartman,C.A., Heath,A.C., Hofman,A.,
            Hooning,M.J., Hopper,J.L., Hu,F.B., Hunter,D.J., Karasik,D.,
            Kiel,D.P., Knight,J.A., Kosma,V.M., Kutalik,Z., Lai,S.,
            Lambrechts,D., Lindblom,A., Magi,R., Magnusson,P.K., Mannermaa,A.,
            Martin,N.G., Masson,G., McArdle,P.F., McArdle,W.L., Melbye,M.,
            Michailidou,K., Mihailov,E., Milani,L., Milne,R.L., Nevanlinna,H.,
            Neven,P., Nohr,E.A., Oldehinkel,A.J., Oostra,B.A., Palotie,A.,
            Peacock,M., Pedersen,N.L., Peterlongo,P., Peto,J., Pharoah,P.D.,
            Postma,D.S., Pouta,A., Pylkas,K., Radice,P., Ring,S.,
            Rivadeneira,F., Robino,A., Rose,L.M., Rudolph,A., Salomaa,V.,
            Sanna,S., Schlessinger,D., Schmidt,M.K., Southey,M.C., Sovio,U.,
            Stampfer,M.J., Stockl,D., Storniolo,A.M., Timpson,N.J., Tyrer,J.,
            Visser,J.A., Vollenweider,P., Volzke,H., Waeber,G.,
            Waldenberger,M., Wallaschofski,H., Wang,Q., Willemsen,G.,
            Winqvist,R., Wolffenbuttel,B.H., Wright,M.J., Boomsma,D.I.,
            Econs,M.J., Khaw,K.T., Loos,R.J., McCarthy,M.I., Montgomery,G.W.,
            Rice,J.P., Streeten,E.A., Thorsteinsdottir,U., van Duijn,C.M.,
            Alizadeh,B.Z., Bergmann,S., Boerwinkle,E., Boyd,H.A., Crisponi,L.,
            Gasparini,P., Gieger,C., Harris,T.B., Ingelsson,E., Jarvelin,M.R.,
            Kraft,P., Lawlor,D., Metspalu,A., Pennell,C.E., Ridker,P.M.,
            Snieder,H., Sorensen,T.I., Spector,T.D., Strachan,D.P.,
            Uitterlinden,A.G., Wareham,N.J., Widen,E., Zygmunt,M., Murray,A.,
            Easton,D.F., Stefansson,K., Murabito,J.M. and Ong,K.K.
  CONSRTM   Australian Ovarian Cancer Study; GENICA Network; kConFab; LifeLines
            Cohort Study; InterAct Consortium; Early Growth Genetics (EGG)
            Consortium
  TITLE     Parent-of-origin-specific allelic associations among 106 genomic
            loci for age at menarche
  JOURNAL   Nature 514 (7520), 92-97 (2014)
   PUBMED   25231870
REFERENCE   4  (bases 1 to 3165)
  AUTHORS   Nanayakkara,S., Senevirathna,S.T., Abeysekera,T., Chandrajith,R.,
            Ratnatunga,N., Gunarathne,E.D., Yan,J., Hitomi,T., Muso,E.,
            Komiya,T., Harada,K.H., Liu,W., Kobayashi,H., Okuda,H.,
            Sawatari,H., Matsuda,F., Yamada,R., Watanabe,T., Miyataka,H.,
            Himeno,S. and Koizumi,A.
  TITLE     An integrative study of the genetic, social and environmental
            determinants of chronic kidney disease characterized by
            tubulointerstitial damages in the North Central Region of Sri Lanka
  JOURNAL   J Occup Health 56 (1), 28-38 (2014)
   PUBMED   24351856
REFERENCE   5  (bases 1 to 3165)
  AUTHORS   Keenan,J., Joyce,H., Aherne,S., O'Dea,S., Doolan,P., Lynch,V. and
            Clynes,M.
  TITLE     Olfactomedin III expression contributes to anoikis-resistance in
            clonal variants of a human lung squamous carcinoma cell line
  JOURNAL   Exp Cell Res 318 (5), 593-602 (2012)
   PUBMED   22281030
  REMARK    GeneRIF: This is the first instance of OLFM3 being linked with
            anoikis resistance in a human cancer cell line
REFERENCE   6  (bases 1 to 3165)
  AUTHORS   Uhl,G.R., Liu,Q.R., Drgon,T., Johnson,C., Walther,D., Rose,J.E.,
            David,S.P., Niaura,R. and Lerman,C.
  TITLE     Molecular genetics of successful smoking cessation: convergent
            genome-wide association study results
  JOURNAL   Arch Gen Psychiatry 65 (6), 683-693 (2008)
   PUBMED   18519826
  REMARK    GeneRIF: Clinical trial and genome-wide association study of
            gene-disease association, gene-environment interaction, and
            pharmacogenomic / toxicogenomic. (HuGE Navigator)
REFERENCE   7  (bases 1 to 3165)
  AUTHORS   Grinchuk,O., Kozmik,Z., Wu,X. and Tomarev,S.
  TITLE     The Optimedin gene is a downstream target of Pax6
  JOURNAL   J Biol Chem 280 (42), 35228-35237 (2005)
   PUBMED   16115881
  REMARK    GeneRIF: Pax6 regulation of Optimedin in the eye and brain may
            directly affect multiple developmental processes, including cell
            migration and axon growth
REFERENCE   8  (bases 1 to 3165)
  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
            BC022531.1, AF397393.2, AK095551.1, HY346025.1 and AL359760.10.
            
            On Nov 30, 2019 this sequence version replaced NM_058170.3.
            
            Transcript Variant: This variant (2) contains an alternate 5'
            terminal exon and initiates translation at an alternate start
            codon, compared to variant 1. It encodes isoform 2, which is
            shorter and has a distinct N-terminus, compared to isoform 1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC022531.1, AF397394.1 [ECO:0000332]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000370103.9/ ENSP00000359121.5
            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
            1-250               BC022531.1         67-316
            251-312             AF397393.2         201-262
            313-1410            BC022531.1         379-1476
            1411-3154           AK095551.1         944-2687
            3155-3158           HY346025.1         28-31               c
            3159-3165           AL359760.10        33233-33239         c
FEATURES             Location/Qualifiers
     source          1..3165
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="1"
                     /map="1p21.1"
     gene            1..3165
                     /gene="OLFM3"
                     /gene_synonym="NOE3; NOELIN3; OPTIMEDIN"
                     /note="olfactomedin 3"
                     /db_xref="GeneID:118427"
                     /db_xref="HGNC:HGNC:17990"
                     /db_xref="MIM:607567"
     exon            1..179
                     /gene="OLFM3"
                     /gene_synonym="NOE3; NOELIN3; OPTIMEDIN"
                     /inference="alignment:Splign:2.1.0"
     CDS             111..1487
                     /gene="OLFM3"
                     /gene_synonym="NOE3; NOELIN3; OPTIMEDIN"
                     /note="isoform 2 precursor is encoded by transcript
                     variant 2; olfactomedin related ER localized protein 3;
                     noelin-3"
                     /codon_start=1
                     /product="noelin-3 isoform 2 precursor"
                     /protein_id="NP_477518.2"
                     /db_xref="CCDS:CCDS30781.1"
                     /db_xref="GeneID:118427"
                     /db_xref="HGNC:HGNC:17990"
                     /db_xref="MIM:607567"
                     /translation="MQATSNLLNLLLLSLFAGLDPSKTQISPKEGWQVYSSAQDPDGR
                     CICTVVAPEQNLCSRDAKSRQLRQLLEKVQNMSQSIEVLNLRTQRDFQYVLKMETQMK
                     GLKAKFRQIEDDRKTLMTKHFQELKEKMDELLPLIPVLEQYKTDAKLITQFKEEIRNL
                     SAVLTGIQEEIGAYDYEELHQRVLSLETRLRDCMKKLTCGKLMKITGPVTVKTSGTRF
                     GAWMTDPLASEKNNRVWYMDSYTNNKIVREYKSIADFVSGAESRTYNLPFKWAGTNHV
                     VYNGSLYFNKYQSNIIIKYSFDMGRVLAQRSLEYAGFHNVYPYTWGGFSDIDLMADEI
                     GLWAVYATNQNAGNIVISQLNQDTLEVMKSWSTGYPKRSAGESFMICGTLYVTNSHLT
                     GAKVYYSYSTKTSTYEYTDIPFHNQYFHISMLDYNARDRALYAWNNGHQVLFNVTLFH
                     IIKTEDDT"
     exon            180..326
                     /gene="OLFM3"
                     /gene_synonym="NOE3; NOELIN3; OPTIMEDIN"
                     /inference="alignment:Splign:2.1.0"
     exon            327..482
                     /gene="OLFM3"
                     /gene_synonym="NOE3; NOELIN3; OPTIMEDIN"
                     /inference="alignment:Splign:2.1.0"
     exon            483..702
                     /gene="OLFM3"
                     /gene_synonym="NOE3; NOELIN3; OPTIMEDIN"
                     /inference="alignment:Splign:2.1.0"
     exon            703..809
                     /gene="OLFM3"
                     /gene_synonym="NOE3; NOELIN3; OPTIMEDIN"
                     /inference="alignment:Splign:2.1.0"
     exon            810..3165
                     /gene="OLFM3"
                     /gene_synonym="NOE3; NOELIN3; OPTIMEDIN"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2129..2134
                     /regulatory_class="polyA_signal_sequence"
                     /gene="OLFM3"
                     /gene_synonym="NOE3; NOELIN3; OPTIMEDIN"
                     /note="hexamer: AATACA"
     polyA_site      2150
                     /gene="OLFM3"
                     /gene_synonym="NOE3; NOELIN3; OPTIMEDIN"
                     /note="major polyA site"
     regulatory      2227..2232
                     /regulatory_class="polyA_signal_sequence"
                     /gene="OLFM3"
                     /gene_synonym="NOE3; NOELIN3; OPTIMEDIN"
                     /note="hexamer: AATGAA"
     polyA_site      2239
                     /gene="OLFM3"
                     /gene_synonym="NOE3; NOELIN3; OPTIMEDIN"
     regulatory      3130..3135
                     /regulatory_class="polyA_signal_sequence"
                     /gene="OLFM3"
                     /gene_synonym="NOE3; NOELIN3; OPTIMEDIN"
                     /note="hexamer: ATTAAA"
     polyA_site      3165
                     /gene="OLFM3"
                     /gene_synonym="NOE3; NOELIN3; OPTIMEDIN"
                     /note="major polyA site"
ORIGIN      
        1 actcggctct gactggcagg cagaaagtgc aactgacgag ggaaaggtct ctgcagtgag
       61 tggagagcct acataaaaga gagtaaagag gggcaaaaac ccagatcaga atgcaggcga
      121 cgtccaacct tctcaacctc ctgctgctgt ctttgtttgc cggattagat ccttccaaga
      181 ctcagattag tcctaaagaa gggtggcagg tgtacagctc agctcaggat cctgatgggc
      241 ggtgcatttg cacagttgtt gctccagaac aaaacctgtg ttcccgggat gccaaaagca
      301 ggcaacttcg ccaactactg gaaaaggttc agaacatgtc ccagtctatt gaagtcttaa
      361 acttgagaac tcagagagat ttccaatatg ttttaaaaat ggaaacccaa atgaaagggc
      421 tgaaggcaaa atttcggcag attgaagatg atcgaaagac acttatgacc aagcattttc
      481 aggagttgaa agagaaaatg gacgagctcc tgcctttgat ccccgtgctg gaacagtaca
      541 aaacagatgc taagttaatc acccagttca aggaggaaat aaggaatctg tctgctgtcc
      601 tcactggtat tcaggaggaa attggtgcct atgactacga ggaactacac caaagagtgc
      661 tgagcttgga aacaagactt cgtgactgca tgaaaaagct aacatgtggc aaactgatga
      721 aaatcacagg cccagttaca gtcaagacat ctggaacccg atttggtgct tggatgacag
      781 accctttagc atctgagaaa aacaacagag tctggtacat ggacagttat actaacaata
      841 aaattgttcg tgaatacaaa tcaattgcag actttgtcag tggggctgaa tcaaggacat
      901 acaaccttcc tttcaagtgg gcaggaacta accatgttgt ctacaatggc tcactctatt
      961 ttaacaagta tcagagtaat atcatcatca aatacagctt tgatatgggg agagtgcttg
     1021 cccaacgaag cctggagtat gctggttttc ataatgttta cccctacaca tggggtggat
     1081 tctctgacat cgacctaatg gctgatgaaa tcgggctgtg ggctgtgtat gcaactaacc
     1141 agaatgcagg caatattgtc atcagccaac ttaaccaaga taccttggag gtgatgaaga
     1201 gctggagcac tggctacccc aagagaagtg caggggaatc tttcatgatc tgtgggacac
     1261 tgtatgtcac caactcccac ttaactggag ccaaggtgta ttattcctat tccaccaaaa
     1321 cctccacata tgagtacaca gacattccct tccataacca atactttcac atatccatgc
     1381 ttgactacaa tgcaagagat cgagctctct atgcctggaa caatggccac caggtgctgt
     1441 tcaatgtcac ccttttccat atcatcaaga cagaggatga cacataggca aatgtgacat
     1501 gttttcattg atttaaacag tgtgatttgt gataaactct ataagacccc ttccgttttt
     1561 ttcttcacta ttatttttca tcatttctcc aaagcaaagc atttttattg taaagttggt
     1621 gtttcaaaaa catagctgag cttgtctaac ttaccatgtt ggaaacacat cttaacttct
     1681 aaatttacaa ggcctatcat gtccttgtca tgaaaagcac taaaaaaaaa aagagtttaa
     1741 gtggctaaag tcatagtttt gcaagagatt aatgatctgc cttatattag agtcagagac
     1801 taatggtggc ttaaatgcac gaatgtcttt ttttttaaaa ctgtcatttt ttactgtctt
     1861 ttgctccata tcaggaaata ttttggtagg aattaggaga acaaaaagca cttttatccc
     1921 atttatttct ttaaaaaatg taaggatttc atttatattg aaaaataata ttaatcattt
     1981 tgctgttaac acaattctct gatgcggtgc tgtacagtca tttttaaatc tcttgctaac
     2041 attttattgg cagtatgtat ttctaccatt gtaaccacca ttgtgctatt gtatctcttc
     2101 acttctgtga aagtaatatt ttttataaaa tacactgaaa tttaacctca gtaattgagt
     2161 ccattttcaa gtgtggtcaa gaataatctt cttggcttac ccctttacat aagcattata
     2221 aactaaaatg aaaaccaaac cagacacctg acatagagtc tttattttac cccaagtttt
     2281 ttgggccact gacattgaat gcaacaactg atttcataca actgagttac tctgttcact
     2341 ccactgaatg caacccatat agtttcttgc acaaggtgca tctggattcc aaatattgga
     2401 tttgagttga ctctactcat ttattataca ctaaagaaat tttgttcttc atagttaaat
     2461 gtactagcat ttaatttata ttttacatac aacttgcaat aatgaaattc cttatgtcag
     2521 gaccctgaaa ataagcacat ttgaaaactc ttagaaaaaa aaaattctgt aatgtcctct
     2581 agatttagat tatgagccct gaggagttat tggcaagatt tgtgcaaaat aaaatatggg
     2641 gagacttggg agttgtcttt gtggtttcaa aagtgtaaat aaccaattca gaaaacaaaa
     2701 tggaaaaacg accccttgtt accttgattc actgtatgtg gaaaaataat gtaaccaaaa
     2761 gggaagagct ttaataatac ttatgttaat aactctatga aacatataag ctaactatat
     2821 atcaaacatt tcattgagtt tggatgtatt ttccacatat taaaaaaata gttccctaag
     2881 gcagctttat ggaaactaat ataggttggt tttacaattt aaaaagtata ttctataata
     2941 aataataaaa caaattgttt taaatgttta gtttcacaca tacatagtac catgattttc
     3001 tttgaaagat aaggatgtaa tgatttagat aaagcatcat gtaaagaaat cctaacattt
     3061 aagtgtaatt catttcaaat gtcacaagta aagcatcatc ctcaaatatc tcactgtcaa
     3121 aattgtagaa ttaaataacc caatcttgaa actgtcaagg tttaa
//
