LOCUS       NM_001037158            4732 bp    mRNA    linear   ROD 20-MAR-2023
DEFINITION  Rattus norvegicus protocadherin gamma subfamily A, 9 (Pcdhga9),
            mRNA.
ACCESSION   NM_001037158 XM_344669
VERSION     NM_001037158.1
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 4732)
  AUTHORS   Baltz AG, Munschauer M, Schwanhausser B, Vasile A, Murakawa Y,
            Schueler M, Youngs N, Penfold-Brown D, Drew K, Milek M, Wyler E,
            Bonneau R, Selbach M, Dieterich C and Landthaler M.
  TITLE     The mRNA-bound proteome and its global occupancy profile on
            protein-coding transcripts
  JOURNAL   Mol Cell 46 (5), 674-690 (2012)
   PUBMED   22681889
REFERENCE   2  (bases 1 to 4732)
  AUTHORS   Zou C, Huang W, Ying G and Wu Q.
  TITLE     Sequence analysis and expression mapping of the rat clustered
            protocadherin gene repertoires
  JOURNAL   Neuroscience 144 (2), 579-603 (2007)
   PUBMED   17110050
REFERENCE   3  (bases 1 to 4732)
  AUTHORS   Wu Q.
  TITLE     Comparative genomics and diversifying selection of the clustered
            vertebrate protocadherin genes
  JOURNAL   Genetics 169 (4), 2179-2188 (2005)
   PUBMED   15744052
REFERENCE   4  (bases 1 to 4732)
  AUTHORS   Murata Y, Hamada S, Morishita H, Mutoh T and Yagi T.
  TITLE     Interaction with protocadherin-gamma regulates the cell surface
            expression of protocadherin-alpha
  JOURNAL   J Biol Chem 279 (47), 49508-49516 (2004)
   PUBMED   15347688
REFERENCE   5  (bases 1 to 4732)
  AUTHORS   Zhang T, Haws P and Wu Q.
  TITLE     Multiple variable first exons: a mechanism for cell- and
            tissue-specific gene regulation
  JOURNAL   Genome Res 14 (1), 79-89 (2004)
   PUBMED   14672974
REFERENCE   6  (bases 1 to 4732)
  AUTHORS   Johnson KJ, Patel SR and Boekelheide K.
  TITLE     Multiple cadherin superfamily members with unique expression
            profiles are produced in rat testis
  JOURNAL   Endocrinology 141 (2), 675-683 (2000)
   PUBMED   10650949
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from AY574020.1.
            
            On Nov 9, 2005 this sequence version replaced XM_344669.2.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AY574020.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760383, SAMEA5760389
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
FEATURES             Location/Qualifiers
     source          1..4732
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="18"
                     /map="18p11"
     gene            1..4732
                     /gene="Pcdhga9"
                     /note="protocadherin gamma subfamily A, 9"
                     /db_xref="GeneID:252895"
                     /db_xref="RGD:620729"
     exon            1..2605
                     /gene="Pcdhga9"
                     /inference="alignment:Splign:2.1.0"
     CDS             185..2980
                     /gene="Pcdhga9"
                     /note="protocadherin gamma-A9"
                     /codon_start=1
                     /product="protocadherin gamma-A9 precursor"
                     /protein_id="NP_001032235.1"
                     /db_xref="GeneID:252895"
                     /db_xref="RGD:620729"
                     /translation="MAAPARRPHCTRLVLLCALLGMLWEARARQIHYSVPEETEKGYT
                     VGNISKDLGLEPRELAERGVRIISKGKTQFFSLSPRSGCLVTAGRIDREELCARIAPC
                     VLSFKVLVEDRVKLYGVEVEVIDINDNAPKFEAENLVVKISEIAAPGARYPLPEAVDP
                     DVGINSLQSYQLSPNRHFSLDIQRGDDGTINPELVLERTLDREEEPSHHLVLTASDGG
                     DPRRSSTALIQVTVLDTNDNAPAFDQPVNRVKVLENVAPGTLLLTVRASDPDEGANGK
                     VTYKFRKMNEKQSLLFHLHENTGEMTVAKTLDYEECSLYEMEIQAEDGGGLKGRTKVV
                     VTVEDVNDNRPEVTITSLFSPVREDAPPGTVIVLFNAHDQDSGKNGQVVCSIQENPSF
                     KLENSVDDYYRLMTAQILDREKASEYNITVTATDRGTPSMSTEVQITLYVADINDNPP
                     AFSQTSYSVYLPENNPRGTSIFSVSAHDPDENENAKVTYSLVENTIQGAPLTSYISIN
                     SDTGVLYALQSFDYEQFRNLQMQVKASDSGHPPLSSNVSLSVFLLDQNDNAPKILYPS
                     LPTDGSTGVELAPRSAEAGYLVTKVVAVDEDSGQNAWLSYRLLKASEPGLFTVGLRSG
                     EVRTARALLERDALKQSLVVAVQDHGQPPLSATVTLTVAVADSIPDILADLSSISTPA
                     DPDSDITLYLVVAVAVVSCVFLLFVLVLLALRLRRWHASSLLQDAIGGSTGVPTSHIV
                     GVHGVQTFLQTYSQEFSLTPDSGKSHLIFPQPNYADTLISQESCGKSEPLCSSVESKF
                     PIDDTPLVPQAPPNTDWRFSQAQRPGTSGSQNGDETGTWPNNQFDTEMLQAMILASAS
                     EAADGSSTLGGGTGTMGLSARYGPQFTLQHVPDYRQNVYIPGSNATLTNAAGKRDGKA
                     PAGGNGNKKKSGKKEKK"
     exon            2606..2664
                     /gene="Pcdhga9"
                     /inference="alignment:Splign:2.1.0"
     exon            2665..2753
                     /gene="Pcdhga9"
                     /inference="alignment:Splign:2.1.0"
     exon            2754..4732
                     /gene="Pcdhga9"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 cctgtcacac aaagctctgc aggtcctaca aactggttcc cggactatag caaaactcaa
       61 ccttctaact tggaaccctc ctgctttctc ctgaggaata agtatcatct ggcagttgga
      121 agaagaaaag aagagcctaa ggagttagcg agcattctga gaaaattccg tagcgaaagc
      181 aacaatggct gccccagcca gacgcccgca ctgcacaaga ctggtcctct tgtgtgcgct
      241 gctggggatg ctgtgggagg ccagggccag gcagatccac tattccgtgc cagaagagac
      301 agaaaagggc tatacagtgg gaaacatctc taaggacctg ggactggaac cccgtgagct
      361 ggcggagcgt ggagtccgca tcatctccaa aggtaagacc cagtttttct ctctgagccc
      421 gcggagcggt tgcttggtca ccgcaggccg gatagaccgg gaggagctgt gtgctcggat
      481 cgctccctgc gtcctaagct ttaaagtcct agttgaagac agagtgaaac tttatggggt
      541 agaagtagaa gtgattgata tcaatgacaa tgcgccaaaa tttgaagccg aaaatttagt
      601 cgtaaaaatc agcgaaatcg ctgcccctgg agcacggtat ccactcccag aagcggttga
      661 cccagatgtg ggcataaact ccctccagag ttaccagctc agccccaacc ggcacttctc
      721 tctggacatt caaaggggag acgacggaac aataaaccca gagttggtgc tggagcgcac
      781 cctggaccga gaggaagagc cctctcacca cctggtcctc accgcctccg atggcggcga
      841 cccgcgccgc tccagcacag cgctcatcca ggtcacagtg ttggatacca acgacaatgc
      901 ccctgctttc gaccaaccgg ttaaccgcgt gaaagtcctc gagaacgtgg ccccgggcac
      961 cctgctgctc acggtgagag ctagcgaccc ggacgagggt gccaatggga aggtgacata
     1021 caaattccgg aaaatgaatg aaaaacagtc gctgttattc catcttcatg aaaacacggg
     1081 ggaaatgaca gtagcgaaaa ctctggacta tgaagaatgc tcattgtatg aaatggaaat
     1141 acaggctgaa gatggcgggg gactgaaagg gcggaccaaa gtggtagtta cggtagaaga
     1201 tgtaaatgac aaccggccgg aagtgaccat tacatctctg tttagcccag taagggaaga
     1261 tgcgccccca gggacagtaa tcgtcctttt caacgctcat gaccaagatt ctgggaagaa
     1321 tgggcaagtt gtctgttcca tccaggagaa cccatctttt aaattagaaa actcagtaga
     1381 cgattactat aggttgatga cagcccagat tcttgaccga gaaaaggctt ctgagtataa
     1441 catcacagtg acagcaacag acaggggaac cccatccatg tccacagagg ttcagatcac
     1501 cctgtatgtg gcggacatca acgacaatcc gcctgccttc tctcaaacct cctactcagt
     1561 ctatctccct gaaaacaacc ccagaggcac ctccatcttc tcagttagcg cccatgatcc
     1621 tgatgaaaat gagaatgcga aggttactta ctctttggtg gaaaacacca tccagggggc
     1681 accactcacc tcctacatct ccattaactc tgacaccggt gtgctctatg ctctgcaatc
     1741 ctttgactat gagcagtttc gaaatctgca gatgcaggtg aaggcaagcg acagcgggca
     1801 tccgccactc agcagtaatg tgtccctgtc tgtgtttcta ttggatcaga atgacaatgc
     1861 tcccaagatc ctctatccct ccctcccgac tgatggctcc actggtgtag agctggctcc
     1921 ccgctctgcc gaggctgggt atctggtgac caaggtggta gcagtggacg aagactctgg
     1981 acagaacgct tggttatctt accgcctgct caaggctagt gagccgggac ttttcacagt
     2041 ggggctccgt tcaggtgaag tccgcacagc tcgcgccctg ctagagagag atgcactcaa
     2101 gcaaagcctc gtggtagctg tgcaggatca tggccagccc cctctttctg ctacggtcac
     2161 tctcacagtg gctgtggcag acagcatccc cgacatcctg gctgacttga gcagtatcag
     2221 cactcctgca gaccctgatt ccgatattac tctctacctg gtggtagcag ttgctgtggt
     2281 ctcctgtgtc ttcctactct ttgtactggt gctgctggca cttaggctac ggcgctggca
     2341 tgcgtcgagc ctgctgcagg atgcaatagg tggatccact ggggtaccaa catcacatat
     2401 tgtgggtgtg catggggttc agactttcct acaaacctat tctcaagagt tttccctcac
     2461 acctgactct gggaagagcc acttgatctt cccccagccc aactatgccg acacgctcat
     2521 cagccaggag agctgtggga aaagcgagcc tctgtgcagc tcggttgagt ccaagtttcc
     2581 tattgatgac actcccttgg ttcctcaagc cccgcccaac actgactggc gtttctctca
     2641 agcccagaga cccggcacga gcggatccca aaatggggat gaaaccggca cctggcccaa
     2701 caaccagttc gatacagaga tgctgcaagc catgatcttg gcctctgcca gtgaagccgc
     2761 tgatgggagc tccactctgg gagggggcac tggcactatg ggtttgagcg ctcgatatgg
     2821 accccagttt accctgcagc acgtgcctga ctaccgccag aacgtgtaca tccctggcag
     2881 caatgccaca ctgaccaacg cagctggcaa acgagatggc aaggctccgg caggcggcaa
     2941 tggcaacaag aagaagtcgg gcaagaaaga gaagaagtaa tatggaggcc aggccttgag
     3001 ccacagggca gcctccctcc ccagccagtc cagcttgtcc ttacttgtac ccaggcctca
     3061 gaatttcagg gctcacccca ggattctggt aggagccaca gccaggccat gctccccgtt
     3121 gggaaacaga aacaagtgcc caagccaaca ccccctcttt gtaccctagg ggggttgaat
     3181 atgcaaagag agttctgctg ggacccccta tccaatcagt gattgtaccc acataggtag
     3241 cagggttagt gtggatacac acacacacac acacacacac acacacacac acacaaacac
     3301 catgccacac tcccctagtt acagctgaac tccccatctt ccaacccagt caggctcatt
     3361 catctccagc ctccctctcc ccaccccacc ctttcagtca acaccctctc tttgagccag
     3421 gtagttgggc tgttggggtg acaggtgagc taagggggct cctagttctg aacaggtggg
     3481 agagtattac aatcctttgg cctctccttc agttcagctg tcccccaaag catggtttgg
     3541 taccagtctt ctcatttcct cctagagcct gagaccaatg cttaagtttt ggggaacagt
     3601 caccatgccc ctggtactga tgatgcttgc tggatttttg ggaaggcatt ttgctactaa
     3661 gcctcttttc aatgcctggg gactaccagt cttctgttct ccattgtttg atgttcccac
     3721 tgcatgctgt gacttcctac tcctcaaaga agagactcct ttgcatgtct ggagacagta
     3781 gggggtggta aactaaaggg aagctgagtg tatactgctg ggagtggggg cagtggacaa
     3841 aacagcctgt taatagggtc ttgcaagggg ctctgtacgt acccagggta ctggctcaat
     3901 cctcaaattc tagccataga caaacatcag gccagacccc tccctcctgg ttcagcctgg
     3961 gcagcttggg ctgagccacc aggaccaatg gatttaagct gacatttcag tccaagaaga
     4021 cttctaagtg agtttaagac cagagaggaa agaggggcct ctgtgggtgc tgggtactcc
     4081 agaggtgccc ttggtgggag ggtcagtggt cctagcagga agggagccca gcaaggtcat
     4141 tcttggaccc tgggtctagt ccggtagcta gaacaaggga ccaagtggct ataaagtctc
     4201 agccaatgat gaggcttttc ccctgggcct ctgggcccct gtattcctca agcccctggc
     4261 ctccacctta ccaggtgcca tttctcagaa ggccactgcc caggccccca ggccgccccc
     4321 tcgtggccac agaccggtta aagcccccca gtgcctcctt gtgcatagaa cttcctctgc
     4381 ccgagccctt acagtagtgt agaagccccc ttcctcctcc cgctggtgta gaatagccaa
     4441 tagtatagtg tggtgtgctt ttacgtgatg gcgagtgggc agcgggcggt gggctgtgcg
     4501 cagccgtctg tcctttgaat ctcaatctgc ctgcgcggcc agtgctgtgt tttgtgctgt
     4561 gtccacacgc tgcggcgacc cctccctgta ctgacttctc tataaaagct tctcttcgca
     4621 tagtcacgta gctcctgccc atcccccttc cgatatctct cgcaagtttt atactctaat
     4681 atttatatgg cttttttctt cgaaaattaa aaataaaaaa tggtttcttc tg
//
