LOCUS       NM_001111135            3003 bp    mRNA    linear   VRT 23-SEP-2023
DEFINITION  Gallus gallus protocadherin alpha 5 (PCDHA5), mRNA.
ACCESSION   NM_001111135
VERSION     NM_001111135.2
KEYWORDS    RefSeq.
SOURCE      Gallus gallus (chicken)
  ORGANISM  Gallus gallus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda;
            Coelurosauria; Aves; Neognathae; Galloanserae; Galliformes;
            Phasianidae; Phasianinae; Gallus.
REFERENCE   1  (bases 1 to 3003)
  AUTHORS   Burge S, Kelly E, Lonsdale D, Mutowo-Muellenet P, McAnulla C,
            Mitchell A, Sangrador-Vegas A, Yong SY, Mulder N and Hunter S.
  TITLE     Manual GO annotation of predictive protein signatures: the InterPro
            approach to GO curation
  JOURNAL   Database (Oxford) 2012, bar068 (2012)
   PUBMED   22301074
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3003)
  AUTHORS   Han MH, Lin C, Meng S and Wang X.
  TITLE     Proteomics analysis reveals overlapping functions of clustered
            protocadherins
  JOURNAL   Mol Cell Proteomics 9 (1), 71-83 (2010)
   PUBMED   19843561
  REMARK    GeneRIF: RNA interference knockdown of both PCDH-alphas and
            PCDH-gamma s showed that PCDHs have redundant functions in
            regulating neuronal survival in the chicken spinal cord.
REFERENCE   3  (bases 1 to 3003)
  AUTHORS   Sugino H, Yanase H, Hamada S, Kurokawa K, Asakawa S, Shimizu N and
            Yagi T.
  TITLE     Distinct genomic sequence of the CNR/Pcdhalpha genes in chicken
  JOURNAL   Biochem Biophys Res Commun 316 (2), 437-445 (2004)
   PUBMED   15020237
  REMARK    GeneRIF: Complete genomic sequence and organization of the Gallus
            gallus protocadherin alpha gene
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAENSK010000254.1.
            
            On Oct 17, 2021 this sequence version replaced NM_001111135.1.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-2544              JAENSK010000254.1  920986-923529
            2545-2604           JAENSK010000254.1  995280-995339
            2605-2694           JAENSK010000254.1  997596-997685
            2695-3003           JAENSK010000254.1  1027330-1027638
FEATURES             Location/Qualifiers
     source          1..3003
                     /organism="Gallus gallus"
                     /mol_type="mRNA"
                     /db_xref="taxon:9031"
                     /chromosome="13"
                     /map="13"
     gene            1..3003
                     /gene="PCDHA5"
                     /gene_synonym="CNRv5"
                     /note="protocadherin alpha 5"
                     /db_xref="CGNC:54327"
                     /db_xref="GeneID:497215"
     CDS             1..3003
                     /gene="PCDHA5"
                     /gene_synonym="CNRv5"
                     /note="cadherin-related neuronal receptor 5"
                     /codon_start=1
                     /product="protocadherin alpha-5 precursor"
                     /protein_id="NP_001104605.1"
                     /db_xref="CGNC:54327"
                     /db_xref="GeneID:497215"
                     /translation="

MVGVGAARRSWAAAVVVLQAAWALVGGQVRYSVPEEAEAGTVVGRLAQDLGLEAGEAEARRLRLVARGRRASVEVSGASGALVVSSRLDREELCGKSAPCALRLEVLLDRPLRVFHVEVEVTDINDNAPRFPNAYKNISIAELTTMPGTRFPLEGASDADIGSNAQLSYTLSPSEHFRIEEENSDSRTQSLFLVLTKPLDRESLSEHRLVLTASDGGRPALTGTVQLVISVLDANDNAPQFNQSVYNAHLSEDALEGTVVVRVNATDPDEGINSEVIYEIDTFSPSSASDIFTIDANTGQIRLTGPLDYETFPLYDLHVKARDKGWPPLSGHCKVVVEVLDVNDNAPEVWVTSLSVPVPEDAALGTVVALLSVSDRDSGPNGRVRCAVRPPSPFGLVATFAGSYSLVLREALDRERVSEYEVEVRAEDGGAPPLRASRGLRVPVSDVNDNAPAFAQAVYTVLARENNAAGAELARLWARDPDEAGNGRVSYSVAEGGAGTGAGSGSGSGWRPASSYVSVDAESGRLRALRPLDYEELQVLQFEVRAVDAGEPPLCGNATVQLFVVDENDNAPALLPPAGGGPWPWAAGEAAEPGSRPPGSAGSAGSAGSAGSAVSSWSLWARAAWGAPAGQVVAKIRAVDADSGYNAWLRYELREPRGEGPFRVGLYSGEVSTARALEEADGPRQRLLIVVRDHGEPPRSATATLSVSLVEGAEAAVGAVSVSAGAGLRPAASAEGGSAASGASAATNVWLVVAICAVSSLLVLAVVLYGAGRWAPRAAVLAGPGPATLVCASEVGSWSYSQRQSRSLCVATDGSGKSDLMVFSPNCPPAPGPAPKETPQEPLSLLDTPKHPNPDWRYSASLRAGMQRVLCIWRRQGSYVEDQEGLTSSGQQSPVLLQPEAGEVSPPVGAGVNSNSWTFKFGPSNSKQGGPGELPDKFIIPGSPAIISIRQEPPNSQIDKSDFITFGKKEETKKKKKKKKGNKTQEKKEKGNSTTENSDQ"

     sig_peptide     1..81
                     /gene="PCDHA5"
                     /gene_synonym="CNRv5"
                     /inference="COORDINATES: ab initio prediction:SignalP:4.0"
     misc_feature    82..327
                     /gene="PCDHA5"
                     /gene_synonym="CNRv5"
                     /note="Cadherin-like; Region: Cadherin_2; pfam08266"
                     /db_xref="CDD:400525"
     misc_feature    409..711
                     /gene="PCDHA5"
                     /gene_synonym="CNRv5"
                     /note="Cadherin tandem repeat domain; Region:
                     Cadherin_repeat; cd11304"
                     /db_xref="CDD:206637"
     misc_feature    order(424..429,598..600,604..606,697..699,703..708)
                     /gene="PCDHA5"
                     /gene_synonym="CNRv5"
                     /note="Ca2+ binding site [ion binding]; other site"
                     /db_xref="CDD:206637"
     misc_feature    733..1035
                     /gene="PCDHA5"
                     /gene_synonym="CNRv5"
                     /note="Cadherin tandem repeat domain; Region:
                     Cadherin_repeat; cd11304"
                     /db_xref="CDD:206637"
     misc_feature    order(754..759,922..924,928..930,1021..1023,1027..1032)
                     /gene="PCDHA5"
                     /gene_synonym="CNRv5"
                     /note="Ca2+ binding site [ion binding]; other site"
                     /db_xref="CDD:206637"
     misc_feature    1057..1350
                     /gene="PCDHA5"
                     /gene_synonym="CNRv5"
                     /note="Cadherin tandem repeat domain; Region:
                     Cadherin_repeat; cd11304"
                     /db_xref="CDD:206637"
     misc_feature    order(1078..1083,1237..1239,1243..1245,1336..1338,
                     1342..1347)
                     /gene="PCDHA5"
                     /gene_synonym="CNRv5"
                     /note="Ca2+ binding site [ion binding]; other site"
                     /db_xref="CDD:206637"
     misc_feature    1372..1710
                     /gene="PCDHA5"
                     /gene_synonym="CNRv5"
                     /note="Cadherin tandem repeat domain; Region:
                     Cadherin_repeat; cd11304"
                     /db_xref="CDD:206637"
     misc_feature    order(1393..1398,1597..1599,1603..1605,1696..1698,
                     1702..1707)
                     /gene="PCDHA5"
                     /gene_synonym="CNRv5"
                     /note="Ca2+ binding site [ion binding]; other site"
                     /db_xref="CDD:206637"
     misc_feature    1876..2130
                     /gene="PCDHA5"
                     /gene_synonym="CNRv5"
                     /note="Cadherin tandem repeat domain; Region:
                     Cadherin_repeat; cd11304"
                     /db_xref="CDD:206637"
     misc_feature    2548..2898
                     /gene="PCDHA5"
                     /gene_synonym="CNRv5"
                     /note="Cadherin C-terminal cytoplasmic tail,
                     catenin-binding region; Region: Cadherin_tail; pfam15974"
                     /db_xref="CDD:435046"
     exon            1..2544
                     /gene="PCDHA5"
                     /gene_synonym="CNRv5"
                     /inference="alignment:Splign:2.1.0"
     exon            2545..2604
                     /gene="PCDHA5"
                     /gene_synonym="CNRv5"
                     /inference="alignment:Splign:2.1.0"
     exon            2605..2694
                     /gene="PCDHA5"
                     /gene_synonym="CNRv5"
                     /inference="alignment:Splign:2.1.0"
     exon            2695..3003
                     /gene="PCDHA5"
                     /gene_synonym="CNRv5"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

atggtcggcgttggagcagcgcggcggagctgggcggccgcggtggtggtgctgcaggcggcctgggcgctggtcggcgggcaggtgcggtactcggtgccggaggaagccgaggccggcacggtggtggggcggctggcgcaggacctgggcctggaggcgggcgaggcggaggcgcggcggctgcgtctggtggcgcggggccggcgggcgagcgtggaggtgagcggggcgagcggggcgctggtggtgagctcgcggctggaccgggaggagctgtgcgggaagagcgcgccgtgcgccctgcgtctggaggtgctgctggaccggccgctgcgcgtcttccacgtggaggtggaggtcaccgacatcaacgacaatgccccgcgcttccccaacgcctacaaaaacatcagcattgcagaattaaccactatgccggggacccgtttcccgctggagggcgcgtcggatgcggatatcggttcgaacgcgcagctctcctatacactgagcccctccgagcacttcaggatagaggaagaaaacagtgactcacgtactcaatctctgttcctggttctcacaaaacctctggaccgcgagtcgctgtccgagcaccgcttggtgctgacggcgagtgacgggggcaggccggcgctgacgggcacggtgcagctggtgatctcggtgctggatgcgaacgacaacgcgccgcagttcaaccagtcggtgtataacgcgcatctgtctgaagacgccttggaaggaacagtggtggtgagagtgaatgccacagatccggacgagggaattaacagtgaagtgatttatgaaatcgatacttttagtccttcatctgcgtctgacattttcacgatcgatgcaaatactgggcaaatcagactcacgggaccgctggactatgagacatttcctttgtatgacctccacgtaaaggcaagagataaggggtggccgcctctgtcgggtcactgcaaagtagtggtggaggtgctggacgtgaacgacaacgcgccggaggtgtgggtgacgtcgctgtcggtgccggtgcccgaggacgcggcgctggggacggtggtggcgctgctgagcgtgtcggaccgggactcggggccgaacgggcgggtgcgctgcgcggtgcggccgccgtcgccgttcgggctggtggcgacgttcgcgggctcgtactcgctggtgctgcgggaggcgctggaccgggagcgggtgtcggagtacgaggtggaggtgcgtgcggaggacggcggggcgccgccgctgcgcgccagccgcgggctgcgggtgccggtgtcggacgtgaacgacaacgcgccggcgttcgcgcaggccgtgtacacggtgctggcgcgggagaacaacgcggcgggcgcggagctggcgcggctgtgggcgcgggacccggacgaggcgggcaacgggcgcgtgagctactcggtggcggagggcggcgcggggacgggcgcgggctcgggctcgggctcggggtggcgtccggcgtcgagctacgtgtcggtggacgcggagagcgggcgcctgcgtgcgctgcgtccgctggactacgaggagctgcaggtgttgcagttcgaggtgcgggcggtggacgcgggggagccgccgctgtgcggcaacgccacggtgcagctgttcgtggtggacgagaacgacaacgcgccggcgctgctgccgcctgcgggcggcgggccgtggccctgggctgcgggcgaggcggcggagccggggtcgcggccgccgggctcggcgggttcggcgggctcggcgggctcggcgggctcggcggtgtcgtcgtggtcgctgtgggcgcgggcggcgtggggcgcgccggcggggcaggtggtggcgaagatccgcgcggtggacgcggactcgggctacaacgcgtggctgcgctacgagctgcgggagccgcggggcgagggcccgttccgcgtggggctgtacagcggcgaggtgagcacggcgcgggcgctggaggaggcggacggcccgcggcagaggctgctgatcgtggtgcgggaccacggggagccgcctcgctcggccacggccacgctgagcgtgtcgctggtggagggcgccgaggcggcggtgggggcggtgtcggtgtcggcgggggcggggctgcggccggcggcgagcgcggagggcggatctgcggcgtcgggagcgtcggcggcgacgaacgtgtggctggtggtggccatctgcgcggtgtcgagcctgttggtgctggcggtggtgctgtacggggccgggcgctgggcgccgcgggcggcggtgctggcggggcccggtccggcgacgctggtgtgcgccagcgaggtgggcagctggtcgtactcgcagcgccagagccggagcctgtgcgtggccacggacggctcgggcaagagcgacctgatggtgttcagccccaactgccctccggcgcctggccccgcgccgaaggagacgccacaggagccgctctctttgctggacacgccaaaacaccccaatcctgactggcgctactccgcgtccctaagggcgggaatgcaaagggtgctgtgcatatggaggaggcagggatcttacgtggaggaccaggagggcctgaccagcagtggccaacagtctccagtgctactccagcctgaggcaggagaggtgtcccccccggtgggagctggtgtgaacagcaacagctggacctttaaatttggacccagcaattcgaaacaaggtggtcctggtgagttgccagacaaattcattatcccaggatctcctgcaatcatctccatccggcaggagccaccaaacagccaaattgacaaaagtgacttcataacctttggcaagaaggaagagaccaagaaaaagaagaaaaagaagaagggaaacaagactcaggagaaaaaagaaaagggcaacagcaccactgagaacagtgaccagtga

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