LOCUS       NM_153703               3002 bp    mRNA    linear   PRI 21-SEP-2024
DEFINITION  Homo sapiens podocan (PODN), transcript variant 1, mRNA.
ACCESSION   NM_153703
VERSION     NM_153703.5
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 3002)
  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 3002)
  AUTHORS   Sun,Y., Luo,D.Y., Zhu,Y.C., Zhou,L., Yang,T.X., Tang,C., Shen,H.
            and Wang,K.J.
  TITLE     MiR 3180-5p promotes proliferation in human bladder smooth muscle
            cell by targeting PODN under hydrodynamic pressure
  JOURNAL   Sci Rep 6, 33042 (2016)
   PUBMED   27608612
  REMARK    GeneRIF: It was apparent that HP upregulates miR-3180-5p, which
            inhibits the expression of PODN and promotes HBSMC proliferation
            via the cdk2 signaling pathway.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3002)
  AUTHORS   Barallobre-Barreiro,J., Oklu,R., Lynch,M., Fava,M., Baig,F.,
            Yin,X., Barwari,T., Potier,D.N., Albadawi,H., Jahangiri,M.,
            Porter,K.E., Watkins,M.T., Misra,S., Stoughton,J. and Mayr,M.
  TITLE     Extracellular matrix remodelling in response to venous
            hypertension: proteomics of human varicose veins
  JOURNAL   Cardiovasc Res 110 (3), 419-430 (2016)
   PUBMED   27068509
REFERENCE   4  (bases 1 to 3002)
  AUTHORS   Hutter,R., Huang,L., Speidl,W.S., Giannarelli,C., Trubin,P.,
            Bauriedel,G., Klotman,M.E., Fuster,V., Badimon,J.J. and
            Klotman,P.E.
  TITLE     Novel small leucine-rich repeat protein podocan is a negative
            regulator of migration and proliferation of smooth muscle cells,
            modulates neointima formation, and is expressed in human atheroma
  JOURNAL   Circulation 128 (22), 2351-2363 (2013)
   PUBMED   24043300
  REMARK    GeneRIF: Podocan appears to be a potent negative regulator of the
            migration and proliferation of vascular smooth muscle cells.
REFERENCE   5  (bases 1 to 3002)
  AUTHORS   Didangelos,A., Yin,X., Mandal,K., Baumert,M., Jahangiri,M. and
            Mayr,M.
  TITLE     Proteomics characterization of extracellular space components in
            the human aorta
  JOURNAL   Mol Cell Proteomics 9 (9), 2048-2062 (2010)
   PUBMED   20551380
REFERENCE   6  (bases 1 to 3002)
  AUTHORS   Shimizu-Hirota,R., Sasamura,H., Kuroda,M., Kobayashi,E. and
            Saruta,T.
  TITLE     Functional characterization of podocan, a member of a new class in
            the small leucine-rich repeat protein family
  JOURNAL   FEBS Lett 563 (1-3), 69-74 (2004)
   PUBMED   15063725
  REMARK    GeneRIF: PODN was characterized in cultured cells.
REFERENCE   7  (bases 1 to 3002)
  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]
REFERENCE   8  (bases 1 to 3002)
  AUTHORS   Ross,M.D., Bruggeman,L.A., Hanss,B., Sunamoto,M., Marras,D.,
            Klotman,M.E. and Klotman,P.E.
  TITLE     Podocan, a novel small leucine-rich repeat protein expressed in the
            sclerotic glomerular lesion of experimental HIV-associated
            nephropathy
  JOURNAL   J Biol Chem 278 (35), 33248-33255 (2003)
   PUBMED   12796502
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AL445183.19.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Aug 1, 2019 this sequence version replaced NM_153703.4.
            
            Summary: The protein encoded by this gene is a member of the small
            leucine-rich repeat protein family and contains an amino terminal
            CX3CXCX7C cysteine-rich cluster followed by a leucine-rich repeat
            domain. Studies suggest that this protein could function to inhibit
            smooth muscle cell proliferation and migration following arterial
            injury. [provided by RefSeq, Jul 2016].
            
            Transcript Variant: This variant (1) represents the shortest
            transcript. Variants 1-3 encode the same protein.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC028292.1, SRR14038193.1497494.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968189, SAMEA1968540
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            CDS uses downstream in-frame AUG :: downstream AUG is associated
                                                with N-terminal localization
                                                signal (PMID:12796502)
            MANE Ensembl match               :: ENST00000312553.10/
                                                ENSP00000308315.6
            RefSeq Select criteria           :: based on manual assertion,
                                                conservation, expression,
                                                longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-96                AL445183.19        108827-108922
            97-463              AL445183.19        116415-116781
            464-557             AL445183.19        118149-118242
            558-622             AL445183.19        121220-121284
            623-732             AL445183.19        122476-122585
            733-889             AL445183.19        123804-123960
            890-1005            AL445183.19        124299-124414
            1006-1663           AL445183.19        124979-125636
            1664-1812           AL445183.19        127342-127490
            1813-2020           AL445183.19        128595-128802
            2021-3002           AL445183.19        131127-132108
FEATURES             Location/Qualifiers
     source          1..3002
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="1"
                     /map="1p32.3"
     gene            1..3002
                     /gene="PODN"
                     /gene_synonym="PCAN; SLRR5A"
                     /note="podocan"
                     /db_xref="GeneID:127435"
                     /db_xref="HGNC:HGNC:23174"
                     /db_xref="MIM:608661"
     exon            1..96
                     /gene="PODN"
                     /gene_synonym="PCAN; SLRR5A"
                     /inference="alignment:Splign:2.1.0"
     exon            97..463
                     /gene="PODN"
                     /gene_synonym="PCAN; SLRR5A"
                     /inference="alignment:Splign:2.1.0"
     CDS             152..1993
                     /gene="PODN"
                     /gene_synonym="PCAN; SLRR5A"
                     /note="podocan proteoglycan"
                     /codon_start=1
                     /product="podocan precursor"
                     /protein_id="NP_714914.3"
                     /db_xref="CCDS:CCDS573.2"
                     /db_xref="GeneID:127435"
                     /db_xref="HGNC:HGNC:23174"
                     /db_xref="MIM:608661"
                     /translation="MAQSRVLLLLLLLPPQLHLGPVLAVRAPGFGRSGGHSLSPEENE
                     FAEEEPVLVLSPEEPGPGPAAVSCPRDCACSQEGVVDCGGIDLREFPGDLPEHTNHLS
                     LQNNQLEKIYPEELSRLHRLETLNLQNNRLTSRGLPEKAFEHLTNLNYLYLANNKLTL
                     APRFLPNALISVDFAANYLTKIYGLTFGQKPNLRSVYLHNNKLADAGLPDNMFNGSSN
                     VEVLILSSNFLRHVPKHLPPALYKLHLKNNKLEKIPPGAFSELSSLRELYLQNNYLTD
                     EGLDNETFWKLSSLEYLDLSSNNLSRVPAGLPRSLVLLHLEKNAIRSVDANVLTPIRS
                     LEYLLLHSNQLREQGIHPLAFQGLKRLHTVHLYNNALERVPSGLPRRVRTLMILHNQI
                     TGIGREDFATTYFLEELNLSYNRITSPQVHRDAFRKLRLLRSLDLSGNRLHTLPPGLP
                     RNVHVLKVKRNELAALARGALVGMAQLRELYLTSNRLRSRALGPRAWVDLAHLQLLDI
                     AGNQLTEIPEGLPESLEYLYLQNNKISAVPANAFDSTPNLKGIFLRFNKLAVGSVVDS
                     AFRRLKHLQVLDIEGNLEFGDISKDRGRLGKEKEEEEEEEEEEEETR"
     exon            464..557
                     /gene="PODN"
                     /gene_synonym="PCAN; SLRR5A"
                     /inference="alignment:Splign:2.1.0"
     exon            558..622
                     /gene="PODN"
                     /gene_synonym="PCAN; SLRR5A"
                     /inference="alignment:Splign:2.1.0"
     exon            623..732
                     /gene="PODN"
                     /gene_synonym="PCAN; SLRR5A"
                     /inference="alignment:Splign:2.1.0"
     exon            733..889
                     /gene="PODN"
                     /gene_synonym="PCAN; SLRR5A"
                     /inference="alignment:Splign:2.1.0"
     exon            890..1005
                     /gene="PODN"
                     /gene_synonym="PCAN; SLRR5A"
                     /inference="alignment:Splign:2.1.0"
     exon            1006..1663
                     /gene="PODN"
                     /gene_synonym="PCAN; SLRR5A"
                     /inference="alignment:Splign:2.1.0"
     exon            1664..1812
                     /gene="PODN"
                     /gene_synonym="PCAN; SLRR5A"
                     /inference="alignment:Splign:2.1.0"
     exon            1813..2020
                     /gene="PODN"
                     /gene_synonym="PCAN; SLRR5A"
                     /inference="alignment:Splign:2.1.0"
     exon            2021..3002
                     /gene="PODN"
                     /gene_synonym="PCAN; SLRR5A"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2984..2989
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PODN"
                     /gene_synonym="PCAN; SLRR5A"
                     /note="hexamer: TATAAA"
     polyA_site      3002
                     /gene="PODN"
                     /gene_synonym="PCAN; SLRR5A"
                     /note="major polyA site"
ORIGIN      
        1 gacttgaatg gaaggagccc gagcccgcgg agcgcagctg agactggggg agcgcgttcg
       61 gcctgtgggg cgccgctcgg cgccggggcg cagcaggttc cgtcagccct ggcgcccagg
      121 cgcatctgac tcggcacccc ctgcaggcac catggcccag agccgggtgc tgctgctcct
      181 gctgctgctg ccgccacagc tgcacctggg acctgtgctt gccgtgaggg ccccaggatt
      241 tggccgaagt ggcggccaca gcctgagccc cgaagagaac gaatttgcgg aggaggagcc
      301 ggtgctggta ctgagccctg aggagcccgg gcctggccca gccgcggtca gctgcccccg
      361 agactgtgcc tgttcccagg agggcgtcgt ggactgtggc ggtattgacc tgcgtgagtt
      421 cccgggggac ctgcctgagc acaccaacca cctatctctg cagaacaacc agctggaaaa
      481 gatctaccct gaggagctct cccggctgca ccggctggag acgctgaacc tgcaaaacaa
      541 ccgcctgact tcccgagggc tcccagagaa ggcgtttgag catctgacca acctcaatta
      601 cctgtacttg gccaataaca agctgacctt ggcaccccgc ttcctgccaa acgccctgat
      661 cagtgtggac tttgctgcca actatctcac caagatctat gggctcacct ttggccagaa
      721 gccaaacttg aggtctgtgt acctgcacaa caacaagctg gcagacgccg ggctgccgga
      781 caacatgttc aacggctcca gcaacgtcga ggtcctcatc ctgtccagca acttcctgcg
      841 ccacgtgccc aagcacctgc cgcctgccct gtacaagctg cacctcaaga acaacaagct
      901 ggagaagatc cccccggggg ccttcagcga gctgagcagc ctgcgcgagc tatacctgca
      961 gaacaactac ctgactgacg agggcctgga caacgagacc ttctggaagc tctccagcct
     1021 ggagtacctg gatctgtcca gcaacaacct gtctcgggtc ccagctgggc tgccgcgcag
     1081 cctggtgctg ctgcacttgg agaagaacgc catccggagc gtggacgcga atgtgctgac
     1141 ccccatccgc agcctggagt acctgctgct gcacagcaac cagctgcggg agcagggcat
     1201 ccacccactg gccttccagg gcctcaagcg gttgcacacg gtgcacctgt acaacaacgc
     1261 gctggagcgc gtgcccagtg gcctgcctcg ccgcgtgcgc accctcatga tcctgcacaa
     1321 ccagatcaca ggcattggcc gcgaagactt tgccaccacc tacttcctgg aggagctcaa
     1381 cctcagctac aaccgcatca ccagcccgca ggtgcaccgc gacgccttcc gcaagctgcg
     1441 cctgctgcgc tcgctggacc tgtcgggcaa ccggctgcac acgctgccac ctgggctgcc
     1501 tcgaaatgtc catgtgctga aggtcaagcg caatgagctg gctgccttgg cacgaggggc
     1561 gctggtgggc atggctcagc tgcgtgagct gtacctcacc agcaaccgac tgcgcagccg
     1621 agccctgggc ccccgtgcct gggtggacct cgcccatctg cagctgctgg acatcgccgg
     1681 gaatcagctc acagagatcc ccgaggggct ccccgagtca cttgagtacc tgtacctgca
     1741 gaacaacaag attagtgcgg tgcccgccaa tgccttcgac tccacgccca acctcaaggg
     1801 gatctttctc aggtttaaca agctggctgt gggctccgtg gtggacagtg ccttccggag
     1861 gctgaagcac ctgcaggtct tggacattga aggcaactta gagtttggtg acatttccaa
     1921 ggaccgtggc cgcttgggga aggaaaagga ggaggaggaa gaggaggagg aggaggaaga
     1981 ggaaacaaga tagtgacaag gtgatgcaga tgtgacctag gacgatggac cgccggactc
     2041 ttttctgcag cacacgcctg tgtgctgtga gccccccact ctgccgtgct cacacagaca
     2101 cacccagctg cacacatgag gcatcccaca tgacacgggc tgacacagtc tcatatcccc
     2161 accccttccc acggcgtgtc ccacggccag acacatgcac acacatcaca ccctcaaaca
     2221 cccagctcag ccacacacaa ctaccctcca aaccaccaca gtctctgtca cacccccact
     2281 accgctgcca cgccctctga atcatgcagg gaagggtctg cccctgccct ggcacacaca
     2341 ggcacccatt ccctccccct gctgacatgt gtatgcgtat gcatacacac cacacacaca
     2401 cacatgcaca agtcatgtgc gaacagccct ccaaagccta tgccacagac agctcttgcc
     2461 ccagccagaa tcagccatag cagctcgccg tctgccctgt ccatctgtcc gtccgttccc
     2521 tggagaagac acaagggtat ccatgctctg tggccaggtg cctgccaccc tctggaactc
     2581 acaaaagctg gcttttattc ctttcccatc ctatggggac aggagccttc aggactgctg
     2641 gcctggcctg gcccaccctg ctcctccagg tgctgggcag tcactctgct aagagtccct
     2701 ccctgccacg ccctggcagg acacaggcac ttttccaatg ggcaagccca gtggaggcag
     2761 gatgggagag ccccctgggt gctgctgggg ccttggggca ggagtgaagc agaggtgatg
     2821 gggctgggct gagccaggga ggaaggaccc agctgcacct aggagacacc tttgttcttc
     2881 aggcctgtgg gggaagttcc gggtgccttt attttttatt cttttctaag gaaaaaaatg
     2941 ataaaaatct caaagctgat ttttcttgtt atagaaaaac taatataaaa gcattatccc
     3001 ta
//
