LOCUS       NM_001415836            3378 bp    mRNA    linear   ROD 09-APR-2024
DEFINITION  Rattus norvegicus polycystin 2 like 1, transient receptor potential
            cation channel (Pkd2l1), transcript variant 1, mRNA.
ACCESSION   NM_001415836 XM_039108876
VERSION     NM_001415836.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 3378)
  AUTHORS   Liu,X., Rich,K., Nasseri,S.M., Li,G., Hjaeresen,S., Finsen,B.,
            Scherberger,H., Svenningsen,A. and Zhang,M.
  TITLE     A Comparison of PKD2L1-Expressing Cerebrospinal Fluid Contacting
            Neurons in Spinal Cords of Rodents, Carnivores, and Primates
  JOURNAL   Int J Mol Sci 24 (17), 13582 (2023)
   PUBMED   37686387
  REMARK    GeneRIF: A Comparison of PKD2L1-Expressing Cerebrospinal Fluid
            Contacting Neurons in Spinal Cords of Rodents, Carnivores, and
            Primates.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3378)
  AUTHORS   Hulse,R.E., Li,Z., Huang,R.K., Zhang,J. and Clapham,D.E.
  TITLE     Cryo-EM structure of the polycystin 2-l1 ion channel
  JOURNAL   Elife 7, e36931 (2018)
   PUBMED   30004384
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3378)
  AUTHORS   Su,Q., Hu,F., Liu,Y., Ge,X., Mei,C., Yu,S., Shen,A., Zhou,Q.,
            Yan,C., Lei,J., Zhang,Y., Liu,X. and Wang,T.
  TITLE     Cryo-EM structure of the polycystic kidney disease-like channel
            PKD2L1
  JOURNAL   Nat Commun 9 (1), 1192 (2018)
   PUBMED   29567962
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 3378)
  AUTHORS   Shimizu,T., Higuchi,T., Toba,T., Ohno,C., Fujii,T., Nilius,B. and
            Sakai,H.
  TITLE     The asparagine 533 residue in the outer pore loop region of the
            mouse PKD2L1 channel is essential for its voltage-dependent
            inactivation
  JOURNAL   FEBS Open Bio 7 (9), 1392-1401 (2017)
   PUBMED   28904867
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 3378)
  AUTHORS   Zocchi,D., Wennemuth,G. and Oka,Y.
  TITLE     The cellular mechanism for water detection in the mammalian taste
            system
  JOURNAL   Nat Neurosci 20 (7), 927-933 (2017)
   PUBMED   28553944
REFERENCE   6  (bases 1 to 3378)
  AUTHORS   Ishimaru,Y., Inada,H., Kubota,M., Zhuang,H., Tominaga,M. and
            Matsunami,H.
  TITLE     Transient receptor potential family members PKD1L3 and PKD2L1 form
            a candidate sour taste receptor
  JOURNAL   Proc Natl Acad Sci U S A 103 (33), 12569-12574 (2006)
   PUBMED   16891422
REFERENCE   7  (bases 1 to 3378)
  AUTHORS   Murakami,M., Ohba,T., Xu,F., Shida,S., Satoh,E., Ono,K.,
            Miyoshi,I., Watanabe,H., Ito,H. and Iijima,T.
  TITLE     Genomic organization and functional analysis of murine PKD2L1
  JOURNAL   J Biol Chem 280 (7), 5626-5635 (2005)
   PUBMED   15548533
REFERENCE   8  (bases 1 to 3378)
  AUTHORS   Li,Q., Liu,Y., Shen,P.Y., Dai,X.Q., Wang,S., Smillie,L.B.,
            Sandford,R. and Chen,X.Z.
  TITLE     Troponin I binds polycystin-L and inhibits its calcium-induced
            channel activation
  JOURNAL   Biochemistry 42 (24), 7618-7625 (2003)
   PUBMED   12809519
REFERENCE   9  (bases 1 to 3378)
  AUTHORS   Li,Q., Liu,Y., Zhao,W. and Chen,X.Z.
  TITLE     The calcium-binding EF-hand in polycystin-L is not a domain for
            channel activation and ensuing inactivation
  JOURNAL   FEBS Lett 516 (1-3), 270-278 (2002)
   PUBMED   11959145
REFERENCE   10 (bases 1 to 3378)
  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
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000001.1.
            
            On Jan 3, 2023 this sequence version replaced XM_039108876.1.
            
            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##
            RNAseq introns :: single sample supports all introns SAMEA5760434
                              [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            inferred exon combination :: based on alignments, homology
            RefSeq Select criteria    :: based on conservation, expression,
                                         longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-409               JAXUCZ010000001.1  253018827-253019235 c
            410-523             JAXUCZ010000001.1  253018217-253018330 c
            524-651             JAXUCZ010000001.1  252992004-252992131 c
            652-905             JAXUCZ010000001.1  252991327-252991580 c
            906-1130            JAXUCZ010000001.1  252990107-252990331 c
            1131-1359           JAXUCZ010000001.1  252989713-252989941 c
            1360-1530           JAXUCZ010000001.1  252988691-252988861 c
            1531-1712           JAXUCZ010000001.1  252988359-252988540 c
            1713-1833           JAXUCZ010000001.1  252987950-252988070 c
            1834-1932           JAXUCZ010000001.1  252986813-252986911 c
            1933-2054           JAXUCZ010000001.1  252986481-252986602 c
            2055-2181           JAXUCZ010000001.1  252984948-252985074 c
            2182-2300           JAXUCZ010000001.1  252984262-252984380 c
            2301-2424           JAXUCZ010000001.1  252983902-252984025 c
            2425-3378           JAXUCZ010000001.1  252982096-252983049 c
FEATURES             Location/Qualifiers
     source          1..3378
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="1"
                     /map="1q54"
     gene            1..3378
                     /gene="Pkd2l1"
                     /note="polycystin 2 like 1, transient receptor potential
                     cation channel"
                     /db_xref="GeneID:293937"
                     /db_xref="RGD:1306261"
     exon            1..409
                     /gene="Pkd2l1"
                     /inference="alignment:Splign:2.1.0"
     CDS             175..2466
                     /gene="Pkd2l1"
                     /note="isoform 1 is encoded by transcript variant 1;
                     polycystic kidney disease 2-like 1 protein;
                     polycystin-2-like protein 1"
                     /codon_start=1
                     /product="polycystin-2-like protein 1 isoform 1"
                     /protein_id="NP_001402765.1"
                     /db_xref="GeneID:293937"
                     /db_xref="RGD:1306261"
                     /translation="MNIMENSKEQELQTLGSRVWDNPAYSSPPSPNGTPRICTVSSVA
                     LPETQPKKPEVRRQEKTPRVPVSGCCLLICRGIRGLWGTTLTENTAENRELYVKTTLR
                     ELVVYIVFLVDVCLLTYGMTSSSAYYYTKVMSELFLHTPSESAVSFQTISSMSDFWDF
                     AQGPLLDSLYWTKWYNNQSLGSSSHSFIYYENLLLGVPRLRQLRVRNDSCVVHEDFRE
                     DILNCYDVYSPDKEDQLPFGPLNGTAWTYHSQNELGGSSHWGRLTSYSGGGYYLDLPG
                     SRQASAEALQGLQEGLWLDRGTRVVFIDFSVYNANINLFCILRLVVEFPATGGAIPSW
                     QIRTVKLIRYVNNWDFFIVGCEVIFCIFIFYYVVEEILEIRVHRFRYLSSVWNILDLV
                     VILLSIVAVGFHVFRTLEVNRLMGELLQQPDTYPDFEFLAFWQTQYNNMNAVNLFFAW
                     IKIFKYISFNKTMTQLSSTLARCAKDILGFAIMFFIVFFAYAQLGYLLFGTQVESFST
                     FVKCIFTQFRIILGDFDYNAIDNANRILGPVYFITYVFFVFFVLLNMFLAIINDTYSE
                     VKEELAGQRDQLQLSDLLKQSYSKTLQRLRLRKERVSDVQKVLKGGEPEIQFEDFTNT
                     LRELGHAEREISEVSAAFTRFDRDGDHILDEEDQAQMRQGLEEERMTLSAETENLGRS
                     VGHSPPGELDAEAARGRSWVSGEEFDMLTRRVLQLQRVLEGVVSQVDALSSKLKMLER
                     KGELAPSPGMEEPAVWENPYNPS"
     exon            410..523
                     /gene="Pkd2l1"
                     /inference="alignment:Splign:2.1.0"
     exon            524..651
                     /gene="Pkd2l1"
                     /inference="alignment:Splign:2.1.0"
     exon            652..905
                     /gene="Pkd2l1"
                     /inference="alignment:Splign:2.1.0"
     exon            906..1130
                     /gene="Pkd2l1"
                     /inference="alignment:Splign:2.1.0"
     exon            1131..1359
                     /gene="Pkd2l1"
                     /inference="alignment:Splign:2.1.0"
     exon            1360..1530
                     /gene="Pkd2l1"
                     /inference="alignment:Splign:2.1.0"
     exon            1531..1712
                     /gene="Pkd2l1"
                     /inference="alignment:Splign:2.1.0"
     exon            1713..1833
                     /gene="Pkd2l1"
                     /inference="alignment:Splign:2.1.0"
     exon            1834..1932
                     /gene="Pkd2l1"
                     /inference="alignment:Splign:2.1.0"
     exon            1933..2054
                     /gene="Pkd2l1"
                     /inference="alignment:Splign:2.1.0"
     exon            2055..2181
                     /gene="Pkd2l1"
                     /inference="alignment:Splign:2.1.0"
     exon            2182..2300
                     /gene="Pkd2l1"
                     /inference="alignment:Splign:2.1.0"
     exon            2301..2424
                     /gene="Pkd2l1"
                     /inference="alignment:Splign:2.1.0"
     exon            2425..3378
                     /gene="Pkd2l1"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 gtgtgagctc agctcagctc ccccacccag acaggaggca gaggctaaag gagagcagct
       61 gctcttagac accactccct gggctctctg cttccagtgt cagtgcgggt cgttgtcccc
      121 gtgtctcctg tgagagtggg cacctgtggt ggcaggtttc cacctctggt ccccatgaat
      181 attatggaga attccaagga gcaggagctg caaacactgg ggagcagagt ctgggacaat
      241 cctgcctaca gcagccctcc ttccccgaat gggaccccga ggatctgcac cgtctccagt
      301 gtggctctcc ctgagactca acctaaaaag ccagaagtca gacgccagga gaagacacca
      361 agagtccctg tgtccggctg ctgtctcctc atctgtcgtg gcatcagagg gctgtggggg
      421 acaacgctga ctgagaacac agccgagaac agagagcttt atgtcaagac taccctgagg
      481 gagcttgtgg tgtacatcgt gttcctcgtg gatgtctgtc tgttgaccta cggaatgaca
      541 agttctagtg cctattacta taccaaagtg atgtccgagc tgttccttca caccccgtca
      601 gagtctgcag tctccttcca gaccatcagc agcatgtcag acttctggga ttttgctcag
      661 ggcccactcc tggacagttt gtactggaca aagtggtaca acaaccagag cctggggagc
      721 agctcccact ctttcatcta ctacgagaac ctgctcctgg gggtcccgag gttgcggcag
      781 ctgcgggtac gcaacgactc ctgtgtggtt cacgaagatt tccgggagga cattttgaac
      841 tgttatgatg tctactctcc ggacaaagaa gaccagctcc cctttggacc tctcaacgga
      901 acagcgtgga cataccattc acagaatgag ctggggggct cctcccactg gggcaggctc
      961 acaagctaca gtggaggtgg ctactacttg gatcttccag gatccagaca agccagtgcg
     1021 gaggccctcc aaggactcca ggagggacta tggctagaca ggggcactcg tgtggtcttt
     1081 atcgacttct ccgtctacaa tgccaacatt aatctcttct gtattctgag actggtggta
     1141 gagttcccag ccacaggagg ggccatcccg tcctggcaga tccgcacggt taagctgatc
     1201 cgctacgtga ataactggga cttcttcatt gtgggctgtg aagtcatctt ttgcatcttc
     1261 atcttctact atgtggtaga ggaaatcctg gaaatccgcg tgcatcggtt tcgctacctc
     1321 agcagcgtct ggaacattct ggacctggtg gtcatcttgc tctccatcgt ggctgtgggg
     1381 ttccatgtat tccgaaccct ggaagtgaac cgactgatgg gagagctcct acagcagcca
     1441 gacacgtatc cagactttga gttcctggcc ttctggcaga ctcagtacaa taacatgaac
     1501 gcggtcaacc ttttctttgc ttggatcaag atattcaagt acatcagctt caacaaaacc
     1561 atgacccagc tctcctccac cctggctcgc tgtgccaagg acatcctggg tttcgccatc
     1621 atgttcttca ttgtcttctt cgcctacgcc cagctcggct acctgctttt cgggacccaa
     1681 gtagaaagct ttagcacttt cgtcaagtgc attttcactc aattccggat aatcctcggg
     1741 gattttgact acaacgccat cgacaatgcc aaccgaatcc tgggccctgt gtacttcatc
     1801 acctatgtct tcttcgtctt ctttgtgctc ctgaacatgt tcctggccat catcaacgac
     1861 acatactcag aggtcaagga ggagctggct ggccagaggg atcagttgca gctttctgac
     1921 ctcctgaaac agagctacag caagacccta caaaggctgc gtctgaggaa agagcgggtt
     1981 tcagatgtgc agaaggtcct gaagggcggg gagccagaga tccagtttga agacttcacc
     2041 aacaccttga gggagctggg gcacgcagag cgtgagatct ctgaggtctc ggctgccttc
     2101 accaggtttg atcgggatgg ggatcacata ctggatgagg aggatcaggc acagatgcga
     2161 caggggctgg aagaggagag gatgaccctc agtgctgaaa ctgagaacct aggccggtct
     2221 gttggccaca gcccaccagg tgaattggat gcagaggctg ccagaggacg aagctgggtc
     2281 tctggagaag aattcgacat gctcacaagg agagttctgc agctgcagcg tgttctggaa
     2341 ggagttgtgt cccaggttga tgccctgagc tcaaagctga agatgctgga gaggaaaggg
     2401 gagttggctc cctccccagg aatggaggag ccagctgttt gggagaaccc ttataatcca
     2461 tcctagttgt cactccagcc cccttgggag ttcagggtgg gcaagaggat ggaaaggggg
     2521 tcctaaagta acagacggca agttcttctc tctaagcctt cccacggcaa gttcttctct
     2581 ctaagccttc ccacaagcct cgtctctacc ccctgcccct ttgtagggca gcatgtctca
     2641 tgagagctgc tatggaattc caccctgtat ctggccttct gagttaatgc tatgcgtgta
     2701 gccaggcagt gtgcttaggc ttgtccctcg gtgtttctat atgtagttgc acagctctgt
     2761 aaagtagcat ttcctacctg gcctctctct tcctgggcac ttacttctgc tgtaatgatt
     2821 gacatgaaca acaaacaaga aaagggagga ggcagccacg actttcccga ggaactcagg
     2881 cagccatgat gagtcaaaag gtagaagttc aaagagtagg caatggagta gcttacattc
     2941 cagtaactct tacccttccc cagtgtgtca agatatctac cattggcatg catggttgtg
     3001 tgtagggggt cttccctttt cccatggagt ttccctgtaa aagagaaaag gaagttgtag
     3061 aggaaagaag attcttgtgt gttgagattc caacagagga gttaagagtg accccctccg
     3121 ggtgaagcca gtgaaggctc ctctggagga cctgccttct gattctggtg ctccactgac
     3181 gacttggaac caaggaggct tcaaacctgg aatcaaacag aacctgaaga aaccaagcaa
     3241 gagatggtgt caggactcac tgatctttgg actaatgtgt ggtggtctct ggctctattc
     3301 atcccaggac aatgtgaggt tccatggtga tttatcaata aaactcttta gaaaaccagg
     3361 tctttgcatt tccttctg
//
