GGRNA | NM_001253837.1

LOCUS       NM_001253837            3082 bp    mRNA    linear   PRI 16-JUN-2013
DEFINITION  Homo sapiens polycystic kidney disease 2-like 1 (PKD2L1),
            transcript variant 2, mRNA.
ACCESSION   NM_001253837
VERSION     NM_001253837.1  GI:359465611
KEYWORDS    RefSeq.
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 3082)
  AUTHORS   Wu,J.H., Lemaitre,R.N., Manichaikul,A., Guan,W., Tanaka,T., Foy,M.,
            Kabagambe,E.K., Djousse,L., Siscovick,D., Fretts,A.M., Johnson,C.,
            King,I.B., Psaty,B.M., McKnight,B., Rich,S.S., Chen,Y.D.,
            Nettleton,J.A., Tang,W., Bandinelli,S., Jacobs,D.R. Jr.,
            Browning,B.L., Laurie,C.C., Gu,X., Tsai,M.Y., Steffen,L.M.,
            Ferrucci,L., Fornage,M. and Mozaffarian,D.
  TITLE     Genome-wide association study identifies novel loci associated with
            concentrations of four plasma phospholipid fatty acids in the de
            novo lipogenesis pathway: results from the Cohorts for Heart and
            Aging Research in Genomic Epidemiology (CHARGE) consortium
  JOURNAL   Circ Cardiovasc Genet 6 (2), 171-183 (2013)
   PUBMED   23362303
REFERENCE   2  (bases 1 to 3082)
  AUTHORS   Adachi,R., Sasaki,Y., Morita,H., Komai,M., Shirakawa,H., Goto,T.,
            Furuyama,A. and Isono,K.
  TITLE     Behavioral analysis of Drosophila transformants expressing human
            taste receptor genes in the gustatory receptor neurons
  JOURNAL   J. Neurogenet. 26 (2), 198-205 (2012)
   PUBMED   22794107
  REMARK    GeneRIF: This study demonistrated that human PKD2L play the role of
            food preference behavior.
REFERENCE   3  (bases 1 to 3082)
  AUTHORS   Molland,K.L., Paul,L.N. and Yernool,D.A.
  TITLE     Crystal structure and characterization of coiled-coil domain of the
            transient receptor potential channel PKD2L1
  JOURNAL   Biochim. Biophys. Acta 1824 (3), 413-421 (2012)
   PUBMED   22193359
  REMARK    GeneRIF: Trimerization may be important for both homo- and possibly
            heteromeric assemblies of PKD2L1.
REFERENCE   4  (bases 1 to 3082)
  AUTHORS   Comuzzie,A.G., Cole,S.A., Laston,S.L., Voruganti,V.S., Haack,K.,
            Gibbs,R.A. and Butte,N.F.
  TITLE     Novel genetic loci identified for the pathophysiology of childhood
            obesity in the Hispanic population
  JOURNAL   PLoS ONE 7 (12), E51954 (2012)
   PUBMED   23251661
REFERENCE   5  (bases 1 to 3082)
  AUTHORS   Demirkan,A., van Duijn,C.M., Ugocsai,P., Isaacs,A.,
            Pramstaller,P.P., Liebisch,G., Wilson,J.F., Johansson,A., Rudan,I.,
            Aulchenko,Y.S., Kirichenko,A.V., Janssens,A.C., Jansen,R.C.,
            Gnewuch,C., Domingues,F.S., Pattaro,C., Wild,S.H., Jonasson,I.,
            Polasek,O., Zorkoltseva,I.V., Hofman,A., Karssen,L.C.,
            Struchalin,M., Floyd,J., Igl,W., Biloglav,Z., Broer,L., Pfeufer,A.,
            Pichler,I., Campbell,S., Zaboli,G., Kolcic,I., Rivadeneira,F.,
            Huffman,J., Hastie,N.D., Uitterlinden,A., Franke,L., Franklin,C.S.,
            Vitart,V., Nelson,C.P., Preuss,M., Bis,J.C., O'Donnell,C.J.,
            Franceschini,N., Witteman,J.C., Axenovich,T., Oostra,B.A.,
            Meitinger,T., Hicks,A.A., Hayward,C., Wright,A.F., Gyllensten,U.,
            Campbell,H. and Schmitz,G.
  CONSRTM   DIAGRAM Consortium; CARDIoGRAM Consortium; CHARGE Consortium;
            EUROSPAN consortium
  TITLE     Genome-wide association study identifies novel loci associated with
            circulating phospho- and sphingolipid concentrations
  JOURNAL   PLoS Genet. 8 (2), E1002490 (2012)
   PUBMED   22359512
REFERENCE   6  (bases 1 to 3082)
  AUTHORS   Veldhuisen,B., Spruit,L., Dauwerse,H.G., Breuning,M.H. and
            Peters,D.J.
  TITLE     Genes homologous to the autosomal dominant polycystic kidney
            disease genes (PKD1 and PKD2)
  JOURNAL   Eur. J. Hum. Genet. 7 (8), 860-872 (1999)
   PUBMED   10602361
REFERENCE   7  (bases 1 to 3082)
  AUTHORS   Chen,X.Z., Vassilev,P.M., Basora,N., Peng,J.B., Nomura,H.,
            Segal,Y., Brown,E.M., Reeders,S.T., Hediger,M.A. and Zhou,J.
  TITLE     Polycystin-L is a calcium-regulated cation channel permeable to
            calcium ions
  JOURNAL   Nature 401 (6751), 383-386 (1999)
   PUBMED   10517637
REFERENCE   8  (bases 1 to 3082)
  AUTHORS   Tsiokas,L., Arnould,T., Zhu,C., Kim,E., Walz,G. and Sukhatme,V.P.
  TITLE     Specific association of the gene product of PKD2 with the TRPC1
            channel
  JOURNAL   Proc. Natl. Acad. Sci. U.S.A. 96 (7), 3934-3939 (1999)
   PUBMED   10097141
REFERENCE   9  (bases 1 to 3082)
  AUTHORS   Wu,G., Hayashi,T., Park,J.H., Dixit,M., Reynolds,D.M., Li,L.,
            Maeda,Y., Cai,Y., Coca-Prados,M. and Somlo,S.
  TITLE     Identification of PKD2L, a human PKD2-related gene: tissue-specific
            expression and mapping to chromosome 10q25
  JOURNAL   Genomics 54 (3), 564-568 (1998)
   PUBMED   9878261
REFERENCE   10 (bases 1 to 3082)
  AUTHORS   Nomura,H., Turco,A.E., Pei,Y., Kalaydjieva,L., Schiavello,T.,
            Weremowicz,S., Ji,W., Morton,C.C., Meisler,M., Reeders,S.T. and
            Zhou,J.
  TITLE     Identification of PKDL, a novel polycystic kidney disease 2-like
            gene whose murine homologue is deleted in mice with kidney and
            retinal defects
  JOURNAL   J. Biol. Chem. 273 (40), 25967-25973 (1998)
   PUBMED   9748274
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AF073481.1, BC025665.1,
            DQ084244.1 and AF053316.1.
            
            Summary: This gene encodes a member of the polycystin protein
            family. The encoded protein contains multiple transmembrane
            domains, and cytoplasmic N- and C-termini. The protein may be an
            integral membrane protein involved in cell-cell/matrix
            interactions. This protein functions as a calcium-regulated
            nonselective cation channel. Two transcript variants encoding
            different isoforms have been found for this gene. [provided by
            RefSeq, Dec 2011].
            
            Transcript Variant: This variant (2) uses an alternate splice
            junction at the 5' end of coding exon compared to variant 1, that
            causes a frameshift. The resulting isoform (2) has a shorter and
            distinct N-terminus compared to isoform 1.
            
            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 :: DQ084244.1 [ECO:0000332]
            RNAseq introns              :: mixed/partial sample support
                                           ERS025081, ERS025082 [ECO:0000350]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-303               AF073481.1         1-303
            304-546             BC025665.1         1-243
            547-755             DQ084244.1         1-209
            756-3070            BC025665.1         431-2745
            3071-3082           AF053316.1         2539-2550
FEATURES             Location/Qualifiers
     source          1..3082
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="10"
                     /map="10q24"
     gene            1..3082
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /note="polycystic kidney disease 2-like 1"
                     /db_xref="GeneID:9033"
                     /db_xref="HGNC:9011"
                     /db_xref="MIM:604532"
     exon            1..618
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /inference="alignment:Splign:1.39.8"
     misc_feature    487..489
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /note="upstream in-frame stop codon"
     CDS             547..2823
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /note="isoform 2 is encoded by transcript variant 2;
                     transient receptor potential cation channel, subfamily P,
                     member 3; polycystin-L; polycystic kidney disease 2-like 1
                     protein; polycystin-L1; polycystin-2L1; polycystin-2
                     homolog"
                     /codon_start=1
                     /product="polycystic kidney disease 2-like 1 protein
                     isoform 2"
                     /protein_id="NP_001240766.1"
                     /db_xref="GI:359465612"
                     /db_xref="GeneID:9033"
                     /db_xref="HGNC:9011"
                     /db_xref="MIM:604532"
                     /translation="

MNPRRRHTGPRCPAAASISVKASEASLPCPLGLWGTTLTENTAENRELYIKTTLRELLVYIVFLVDICLLTYGMTSSSAYYYTKVMSELFLHTPSDTGVSFQAISSMADFWDFAQGPLLDSLYWTKWYNNQSLGHGSHSFIYYENMLLGVPRLRQLKVRNDSCVVHEDFREDILSCYDVYSPDKEEQLPFGPFNGTAWTYHSQDELGGFSHWGRLTSYSGGGYYLDLPGSRQGSAEALRALQEGLWLDRGTRVVFIDFSVYNANINLFCVLRLVVEFPATGGAIPSWQIRTVKLIRYVSNWDFFIVGCEVIFCVFIFYYVVEEILELHIHRLRYLSSIWNILDLVVILLSIVAVGFHIFRTLEVNRLMGKLLQQPNTYADFEFLAFWQTQYNNMNAVNLFFAWIKIFKYISFNKTMTQLSSTLARCAKDILGFAVMFFIVFFAYAQLGYLLFGTQVENFSTFIKCIFTQFRIILGDFDYNAIDNANRILGPAYFVTYVFFVFFVLLNMFLAIINDTYSEVKEELAGQKDELQLSDLLKQGYNKTLLRLRLRKERVSDVQKVLQGGEQEIQFEDFTNTLRELGHAEHEITELTATFTKFDRDGNRILDEKEQEKMRQDLEEERVALNTEIEKLGRSIVSSPQGKSGPEAARAGGWVSGEEFYMLTRRVLQLETVLEGVVSQIDAVGSKLKMLERKGWLAPSPGVKEQAIWKHPQPAPAVTPDPWGVQGGQESEVPYKREEEALEERRLSRGEIPTLQRS

"
     misc_feature    841..2106
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /note="Polycystin cation channel; Region: PKD_channel;
                     pfam08016"
                     /db_xref="CDD:203839"
     variation       581
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /replace="a"
                     /replace="g"
                     /db_xref="dbSNP:569511"
     exon            619..754
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /inference="alignment:Splign:1.39.8"
     exon            755..882
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /inference="alignment:Splign:1.39.8"
     exon            883..1136
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /inference="alignment:Splign:1.39.8"
     variation       1021
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /replace="c"
                     /replace="t"
                     /db_xref="dbSNP:2305383"
     exon            1137..1361
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /inference="alignment:Splign:1.39.8"
     exon            1362..1590
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /inference="alignment:Splign:1.39.8"
     variation       1582
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /replace="a"
                     /replace="g"
                     /db_xref="dbSNP:2278842"
     exon            1591..1761
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /inference="alignment:Splign:1.39.8"
     exon            1762..1943
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /inference="alignment:Splign:1.39.8"
     exon            1944..2064
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /inference="alignment:Splign:1.39.8"
     exon            2065..2163
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /inference="alignment:Splign:1.39.8"
     exon            2164..2285
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /inference="alignment:Splign:1.39.8"
     exon            2286..2412
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /inference="alignment:Splign:1.39.8"
     exon            2413..2531
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /inference="alignment:Splign:1.39.8"
     exon            2532..2655
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /inference="alignment:Splign:1.39.8"
     exon            2656..2740
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /inference="alignment:Splign:1.39.8"
     exon            2741..3073
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
                     /inference="alignment:Splign:1.39.8"
     polyA_signal    3051..3056
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
     polyA_site      3073
                     /gene="PKD2L1"
                     /gene_synonym="PCL; PKD2L; PKDL; TRPP3"
ORIGIN

cagcatcgccttttcctcccgtttctccttccactcccagctccacatcctcctcctattctcccctctcccctcttcaaacccccaccttccagttccctcacctcccctttcggctggtcccctggggcttgcagcaagagggagagagagctcctgacaggattgatggtccttccccaccctgtcctctcatccgctccctccccagcaggcacagacatccccctacaaaaggcaggagcccaggctgtgtggaaacagctgctctcagacgcctttccatttgctctctgctggctaggctgggctgtgcctctgctccctcttcctctagctgagagtgggcacctggggtaccgggcccccccacctcattccccatgaatgctgtgggaagtcctgaggggcaggagctgcaaaagctggggagtggagcctgggacaaccccgcctacagtggtcccccttccccacacgggacgctgagagtctgcaccatctccagcacggggcctctccagccccaacccaagaagcctgaagatgaaccccaggagacggcatacaggacccaggtgtccagctgctgcctccatatctgtcaaggcatcagaggcatctctcccatgccccttaggactttggggaacaaccctgactgagaacacagctgagaaccgggaactttatatcaagaccaccctgagggagctgttggtatatattgtgttcctggtggacatctgtctactgacctatggaatgacaagctccagtgcttattactacaccaaagtgatgtctgagctcttcttacatactccatcagacactggagtctcctttcaggccatcagcagcatggcggacttctgggattttgcccagggcccactactggacagtttgtattggaccaaatggtacaacaaccagagcctgggccatggctcccactccttcatctactatgagaacatgctgctgggggttccgaggctgcggcagctaaaggtccgcaatgactcctgtgtggtgcatgaagacttccgggaggacattctgagctgctatgatgtctactctccagacaaagaagaacaactcccctttgggcccttcaatggcacagcgtggacataccactcgcaggatgagttggggggcttctcccactggggcaggctcacaagctacagcggaggtggctactacctggaccttccaggatcccgacagggtagtgcagaggctctccgggcccttcaggaggggctgtggctggacaggggcactcgagtggtgttcatcgacttctcagtctacaatgccaatatcaatcttttctgtgtcctgaggctggtggtggagtttccagctacaggaggtgccatcccatcctggcaaatccgcacagtcaagctgatccgctatgtcagcaactgggacttctttatcgttggctgtgaggtcatcttctgcgtcttcatcttctactatgtggtggaagagatcctggagctccacattcaccggcttcgctacctcagcagcatctggaacatactggacctggtggtcatcttgctctccattgtggctgtgggcttccacatattccgaaccctcgaggtgaatcggctcatggggaagctcctgcagcagccaaacacgtatgcagactttgagttcctcgccttctggcagacacagtacaacaacatgaatgctgtcaacctcttcttcgcctggatcaagatattcaagtacatcagcttcaacaaaaccatgacccagctctcctccacgctggcccgctgtgccaaggacatcctgggcttcgccgtcatgttcttcattgttttcttcgcctatgcccaactcggctacctgcttttcgggacccaagtggaaaactttagcactttcatcaagtgcattttcactcagttccggataatcctcggggactttgactacaatgctatcgacaatgccaaccgcatcctgggccctgcctactttgtcacctatgtcttcttcgtcttcttcgtgctcctgaacatgttcctggccatcatcaatgacacatattcagaggtcaaggaggagctggctggacagaaggatgagctgcaactttctgacctcctgaaacagggctacaacaagaccctactaagactgcgtctgaggaaggagagggtttcggatgtgcagaaggtcctgcagggtggggagcaggagatccagtttgaggatttcaccaacaccttaagggaactgggacacgcagagcatgaaatcactgagctcacggccaccttcaccaagtttgacagagatgggaatcgtattctggatgagaaggaacaggaaaaaatgcgacaggacctggaggaagagagggtggccctcaacactgagattgagaaactaggccgatctattgtgagcagcccacaaggcaaatcgggtccagaggctgccagagcaggaggctgggtttcaggagaagaattctacatgctcacaaggagagttctgcagctggagactgtcctggaaggagtagtgtcccagattgatgctgtaggctcaaagctgaaaatgctggagaggaaggggtggctggctccctccccaggcgtgaaggaacaagctatttggaagcacccgcagccagccccagctgtgaccccagacccctggggagtccagggtgggcaggagagtgaggttccctataaaagagaagaggaagccttagaggagaggagactctcccgtggtgagattccaacgttgcagaggagttaagtgtgaggcactcccggagcaaagtctatgaaggatcttctgcaagaggctgcctcctggtccactgaacctggaaactgagtgggctttaaccaggagataaaaatggagcctgaagggaatcaggcaaggaaatgaactcaggattcagagatctttgaattaatatgtggtgggttctgacattattcttccataagaccatgtgggtttccatggtggctatcaataaaactccttaggaaaacttaaaaaaaaa

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