LOCUS       NM_018914               4787 bp    mRNA    linear   PRI 04-APR-2024
DEFINITION  Homo sapiens protocadherin gamma subfamily A, 11 (PCDHGA11),
            transcript variant 1, mRNA.
ACCESSION   NM_018914
VERSION     NM_018914.3
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 4787)
  AUTHORS   Jiang,Z., Zhou,W., Li,X.G., Jiang,Y.Q., Wang,L., Wang,D.H.,
            Wang,X.Y. and Li,X.E.
  TITLE     [The methylation analysis of EMP3 and PCDH-gamma-A11 gene in human
            glioma]
  JOURNAL   Zhonghua Wai Ke Za Zhi 48 (4), 300-304 (2010)
   PUBMED   20388442
  REMARK    GeneRIF: The promoter methylation and mRNA expressions of EMP3 and
            PCDH-gamma-A11 are closely related with the malignant development
            of glioma.
REFERENCE   2  (bases 1 to 4787)
  AUTHORS   Waha,A., Guntner,S., Huang,T.H., Yan,P.S., Arslan,B., Pietsch,T.,
            Wiestler,O.D. and Waha,A.
  TITLE     Epigenetic silencing of the protocadherin family member
            PCDH-gamma-A11 in astrocytomas
  JOURNAL   Neoplasia 7 (3), 193-199 (2005)
   PUBMED   15799819
  REMARK    GeneRIF: PCDH-gamma-A11 is silenced epigenetically in astrocytic
            gliomas
REFERENCE   3  (bases 1 to 4787)
  AUTHORS   Wu,Q., Zhang,T., Cheng,J.F., Kim,Y., Grimwood,J., Schmutz,J.,
            Dickson,M., Noonan,J.P., Zhang,M.Q., Myers,R.M. and Maniatis,T.
  TITLE     Comparative DNA sequence analysis of mouse and human protocadherin
            gene clusters
  JOURNAL   Genome Res 11 (3), 389-404 (2001)
   PUBMED   11230163
REFERENCE   4  (bases 1 to 4787)
  AUTHORS   Nollet,F., Kools,P. and van Roy,F.
  TITLE     Phylogenetic analysis of the cadherin superfamily allows
            identification of six major subfamilies besides several solitary
            members
  JOURNAL   J Mol Biol 299 (3), 551-572 (2000)
   PUBMED   10835267
  REMARK    Review article
REFERENCE   5  (bases 1 to 4787)
  AUTHORS   Yagi,T. and Takeichi,M.
  TITLE     Cadherin superfamily genes: functions, genomic organization, and
            neurologic diversity
  JOURNAL   Genes Dev 14 (10), 1169-1180 (2000)
   PUBMED   10817752
  REMARK    Review article
REFERENCE   6  (bases 1 to 4787)
  AUTHORS   Wu,Q. and Maniatis,T.
  TITLE     Large exons encoding multiple ectodomains are a characteristic
            feature of protocadherin genes
  JOURNAL   Proc Natl Acad Sci U S A 97 (7), 3124-3129 (2000)
   PUBMED   10716726
REFERENCE   7  (bases 1 to 4787)
  AUTHORS   Wu,Q. and Maniatis,T.
  TITLE     A striking organization of a large family of human neural
            cadherin-like cell adhesion genes
  JOURNAL   Cell 97 (6), 779-790 (1999)
   PUBMED   10380929
REFERENCE   8  (bases 1 to 4787)
  AUTHORS   Adams,M.D., Kerlavage,A.R., Fleischmann,R.D., Fuldner,R.A.,
            Bult,C.J., Lee,N.H., Kirkness,E.F., Weinstock,K.G., Gocayne,J.D.,
            White,O. et al.
  TITLE     Initial assessment of human gene diversity and expression patterns
            based upon 83 million nucleotides of cDNA sequence
  JOURNAL   Nature 377 (6547 Suppl), 3-174 (1995)
   PUBMED   7566098
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AA329824.1, DA503678.1 and
            AF152320.1.
            
            On Nov 23, 2018 this sequence version replaced NM_018914.2.
            
            Summary: This gene is a member of the protocadherin gamma gene
            cluster, one of three related clusters tandemly linked on
            chromosome five. These gene clusters have an immunoglobulin-like
            organization, suggesting that a novel mechanism may be involved in
            their regulation and expression. The gamma gene cluster includes 22
            genes divided into 3 subfamilies. Subfamily A contains 12 genes,
            subfamily B contains 7 genes and 2 pseudogenes, and the more
            distantly related subfamily C contains 3 genes. The tandem array of
            22 large, variable region exons are followed by a constant region,
            containing 3 exons shared by all genes in the cluster. Each
            variable region exon encodes the extracellular region, which
            includes 6 cadherin ectodomains and a transmembrane region. The
            constant region exons encode the common cytoplasmic region. These
            neural cadherin-like cell adhesion proteins most likely play a
            critical role in the establishment and function of specific
            cell-cell connections in the brain. Alternative splicing has been
            described for the gamma cluster genes. [provided by RefSeq, Jul
            2008].
            
            Transcript Variant: This variant (1) includes the constant region
            exons and encodes the longest isoform (1).
            
            ##Evidence-Data-START##
            Transcript exon combination :: AF152320.1, SRR1660807.31211.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000398587.7/ ENSP00000381589.2
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-30                AA329824.1         82-111
            31-177              DA503678.1         1-147
            178-4787            AF152320.1         1-4610
FEATURES             Location/Qualifiers
     source          1..4787
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="5"
                     /map="5q31.3"
     gene            1..4787
                     /gene="PCDHGA11"
                     /gene_synonym="PCDH-GAMMA-A11"
                     /note="protocadherin gamma subfamily A, 11"
                     /db_xref="GeneID:56105"
                     /db_xref="HGNC:HGNC:8698"
                     /db_xref="MIM:606298"
     exon            1..2610
                     /gene="PCDHGA11"
                     /gene_synonym="PCDH-GAMMA-A11"
                     /inference="alignment:Splign:2.1.0"
     CDS             178..2985
                     /gene="PCDHGA11"
                     /gene_synonym="PCDH-GAMMA-A11"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; protocadherin gamma-A11"
                     /codon_start=1
                     /product="protocadherin gamma-A11 isoform 1 precursor"
                     /protein_id="NP_061737.1"
                     /db_xref="CCDS:CCDS47294.1"
                     /db_xref="GeneID:56105"
                     /db_xref="HGNC:HGNC:8698"
                     /db_xref="MIM:606298"
                     /translation="MANRLQRGDRSRLLLLLCIFLGTLRGFRARQIRYSVPEETEKGS
                     FVGNISKDLGLEPRELAKRGVRIVSRGKTQLFAVNPRSGSLITAGRIDREELCETVSS
                     CFLNMELLVEDTLKIYGVEVEIIDINDNAPSFQEDEVEIKVSEHAIPGARFALPNARD
                     PDVGVNSLQSYQLSPNNYFSLQLRGRTDGAKNPELVLEGSLDREKEAAHLLLLTALDG
                     GDPIRKGAVPIRVVVLDVNDHIPMFTQSVYRVSVPENISSGTRVLMVNATDPDEGING
                     EVMYSFRNMESKASEIFQLDSQTGEVQVRGSLDFEKYRFYEMEIQGQDGGGLFTTTTM
                     LITVVDVNDNAPEITITSSINSILENSPPGTVIALLNVQDQDSGENGQVSCFIPNHLP
                     FKLEKTYGNYYKLITSRVLDRELVQSYNITLTATDQGSPPLSAETHVWLNVADDNDNP
                     PVFPHSSYSAYIPENNPRGASIFSVTALDPDSKQNALVTYSLTDDTVQGVPLSSYVSI
                     NSNTGVLYALQSFDYEQFRDLELRVIARDSGDPPLSSNVSLSLFVLDQNDNAPEILYP
                     ALPTDGSTGVELAPRSAEPGYLVTKVVAVDKDSGQNAWLSYRLLKASEPGLFAVGEHT
                     GEVRTARALLDRDALKQSLVVAVQDHGQPPLSATVTLTVAVADSIPEVLADLGSLESL
                     ANSETSDLSLYLVVAVAAVSCIFLVFVIVLLALRLWRWHKSRLLQASEGGLAGMPTSH
                     FVGVDGVQAFLQTYSHEVSLIADSQKSHLIFPQPNYGDTLISQESCEKSEPLLIAEDS
                     AIILGKCDPTSNQQAPPNTDWRFSQAQRPGTSGSQNGDDTGTWPNNQFDTEMLQAMIL
                     ASASEAADGSSTLGGGAGTMGLSARYGPQFTLQHVPDYRQNVYIPGSNATLTNAAGKR
                     DGKAPAGGNGNKKKSGKKEKK"
     exon            2611..2669
                     /gene="PCDHGA11"
                     /gene_synonym="PCDH-GAMMA-A11"
                     /inference="alignment:Splign:2.1.0"
     exon            2670..2758
                     /gene="PCDHGA11"
                     /gene_synonym="PCDH-GAMMA-A11"
                     /inference="alignment:Splign:2.1.0"
     exon            2759..4787
                     /gene="PCDHGA11"
                     /gene_synonym="PCDH-GAMMA-A11"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4766..4771
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PCDHGA11"
                     /gene_synonym="PCDH-GAMMA-A11"
                     /note="hexamer: AATAAA"
     polyA_site      4787
                     /gene="PCDHGA11"
                     /gene_synonym="PCDH-GAMMA-A11"
                     /note="major polyA site"
ORIGIN      
        1 accacacaaa gcggaatgag atggatactc acagatcctg acactggaga cttagaagta
       61 ttttccttcg ctttctgata tattttggat gtagtcggcc taggacttca tagatacata
      121 agccgattca caaccaacca gctcgagaaa ccgcggaata tcggcttaga gcctgccatg
      181 gcgaatcggc tacagcgcgg ggaccgcagt cggctgctgc tgctgctgtg cattttcctg
      241 gggacgctgc gggggttccg ggccaggcag atccgatatt cggtgccaga agagaccgaa
      301 aagggctcct tcgtgggcaa tatctccaag gacctggggc tggagccccg ggagctggcg
      361 aagcgcggag tccgcatcgt ctccagaggg aagacacagc ttttcgctgt gaatccgcga
      421 agcggcagct tgatcacggc aggcaggata gaccgggagg agctctgtga gacggtgtcc
      481 tcctgttttt taaatatgga acttctcgtg gaagacacct tgaagattta cggagtggag
      541 gtggaaataa tagatattaa tgataacgcc cccagcttcc aggaggacga agtggagata
      601 aaagtcagtg agcacgcaat tcctggggcg cgatttgctc ttcctaatgc tagggatcca
      661 gatgtgggcg tgaactccct ccagagctac cagctcagcc ctaataatta cttttccttg
      721 caactgcggg gcagaacgga tggggccaag aatccagagc tagtactgga gggaagcctg
      781 gaccgagaga aagaggctgc tcacctgctc ctcctcacag ctttagatgg aggcgatccc
      841 atccgaaagg gcgcagttcc cattcgtgtg gtggtcctcg atgtaaatga tcacatccca
      901 atgtttacac agtccgtata tcgcgtgagt gttccagaaa acatcagctc cggaactcgg
      961 gtgctgatgg ttaatgcaac ggatccagac gagggaatca acggggaagt aatgtattca
     1021 tttcggaaca tggaaagcaa ggcttctgaa atattccaat tggattcaca aactggagaa
     1081 gttcaagtac gggggtctct ggattttgaa aaatatagat tctatgagat ggaaattcaa
     1141 ggccaagatg gtggaggtct ctttaccacc acgacgatgt tgatcactgt tgtggatgtg
     1201 aatgataacg ctccagaaat aactatcacc tcttctatta attcaattct ggaaaactct
     1261 cctccaggta cagtgattgc tcttctaaat gtgcaagatc aagattctgg agaaaatggt
     1321 caagtctcct gttttattcc taaccacctg ccttttaaat tagaaaagac ttatggaaat
     1381 tattacaaat tgataacaag cagagtgctg gacagggagt tggtccagag ctacaatata
     1441 acgttgacag ccacagacca gggaagcccg cctttgtctg cagaaactca tgtctggctg
     1501 aatgtggcag atgacaacga taaccctccc gtttttcctc actcctctta ctctgcctac
     1561 attcccgaaa acaaccccag gggtgcctcc atcttctcag tgaccgccct cgacccggac
     1621 agcaaacaga atgccctggt cacttactct ctgacggatg acactgtcca gggggtgcct
     1681 ctgtcctcct atgtctctat taactccaac actggtgttc tctatgccct acaatccttc
     1741 gactatgagc agtttcgaga cttagaactg agagtgatag cacgtgacag cggggacccg
     1801 cccctcagca gcaacgtgtc gctgagcctg ttcgtgctgg accagaacga caatgcgccc
     1861 gagatcctgt accctgccct ccccacagac ggctccactg gcgtggagct ggcgccccgc
     1921 tctgcggaac ctggctacct ggtgaccaag gtggttgcgg tggacaaaga ttcaggccag
     1981 aacgcctggc tgtcctatcg cctgcttaag gccagcgagc cgggactctt cgcggtgggg
     2041 gagcacacgg gcgaggtgcg tacagcgcgg gcactgctgg acagagacgc gctcaagcag
     2101 agcctcgtgg tggccgtcca ggaccacggc cagccccctc tctcggccac cgtcacgctc
     2161 accgtggctg tggccgacag catccccgaa gtcctggcgg acctcggcag cctcgagtct
     2221 ctggctaact ctgaaacctc agacctctcg ctgtacttgg tggtggcggt ggccgcagtc
     2281 tcctgcatct tcctggtctt tgtcatcgtg ctgctggcac tcaggctgtg gcgctggcat
     2341 aagtcacgcc tgctgcaggc ttctgaaggc gggttggcag gtatgcccac gtcacatttt
     2401 gtaggcgtgg acggggtaca ggctttcctg caaacctatt cccacgaggt ctctctcatt
     2461 gcggactcgc agaagagtca cctgattttc ccccagccca actatgggga cacgctcatc
     2521 agccaggaga gctgtgagaa aagcgagcca ctcttgatag ctgaagactc agctatcatt
     2581 ttaggcaaat gtgacccgac aagtaatcag caagccccgc ccaacacgga ctggcgtttc
     2641 tctcaggccc agagacccgg caccagcggc tcccaaaatg gcgatgacac cggcacctgg
     2701 cccaacaacc agtttgacac agagatgctg caagccatga tcttggcgtc cgccagtgaa
     2761 gctgctgatg ggagctccac cctgggaggg ggtgccggca ccatgggatt gagcgcccgc
     2821 tacggacccc agttcaccct gcagcacgtg cccgactacc gccagaatgt ctacatccca
     2881 ggcagcaatg ccacactgac caacgcagct ggcaagcggg atggcaaggc cccagcaggt
     2941 ggcaatggca acaagaagaa gtcgggcaag aaggagaaga agtaacatgg aggccaggcc
     3001 aagagccaca gggcggcctc tccccaacca gcccagcttc tccttacctg cacccaggcc
     3061 tcagagtttc agggctaacc cccagaatac tggtaggggc caaggccatg ctccccttgg
     3121 gaaacagaaa caagtgccca gtcagcacct accccttccc ccccaggggg ttgaatatgc
     3181 aaaagcagtt ccgctgggaa cccccatcca atcaactgct gtacccatgg gggtagtggg
     3241 gttactgtag acaccaagaa ccatttgcca caccccgttt agttacagct gaactcctcc
     3301 atcttccaaa tcaatcaggc ccatccatcc catgcctccc tcctccccac cccactccaa
     3361 cagttcctct ttcccgagta aggtggttgg ggtgttgaag taccaagtaa cctacaagcc
     3421 tcctagttct gaaaagttgg aagggcatca tgacctcttg gcctctcctt tgattctcaa
     3481 tcttccccca aagcatggtt tggtgccagc cccttcacct ccttccagag cccaagatca
     3541 atgctcaagt tttggaggac atgatcacca tccccatggt actgatgctt gctggattta
     3601 gggagggcat tttgctacca agcctcttcc caacgccctg gggaccagtc ttctgttttg
     3661 tttttcattg tttgacgttt ccactgcatg ccttgacttc ccccacctcc tcctcaaaca
     3721 agagactcca ctgcatgttc caagacagta tggggtggta agataaggaa gggaagtgtg
     3781 tggatgtgga tggtgggggc atggacaaag cttgacacat caagttatca aggccttgga
     3841 ggaggctctg tatgtcctca ggggactgac aacatcctcc agattccagc cataaaccaa
     3901 taactaggct ggacccttcc cactacataa tagggctcag cccaggcagc cagctttggg
     3961 ctgagctaac aggaccaatg gattaaactg gcatttcagt ccaaggaagc tcgaagcagg
     4021 tttaggacca ggtccccttg agaggtcaga ggggcctctg tgggtgctgg gtactccaga
     4081 ggtgccactg gtggaagggt cagcggagcc ccagcaggaa gggtgggcca gccaggccat
     4141 tcttagtccc tgggttgggg aggcagggag ctagggcagg gaccaaatga acagaaagtc
     4201 tcagcccagg atggggcttc ttcaacaggg cccctgccct cctgaagcct cagtccttca
     4261 ccttgccagg tgccgtttct cttccgtgaa ggccactgcc caggtcccca gtgcgccccc
     4321 tagtggccat agcctggtta aagttcccca gtgcctcctt gtgcatagac cttcttctcc
     4381 cacccccttc tgcccctggg tccccggcca tccagcgggg ctgccagaga accccagacc
     4441 tgcccttaca gtagtgtagc gccccctccc tctttcggct ggtgtagaat agccagtagt
     4501 gtagtgcggt gtgcttttac gtgatggcgg gtgggcagcg ggcggcgggc tccgcgcagc
     4561 cgtctgtcct tgatctgccc gcggcggccc gtgttgtgtt ttgtgctgtg tccacgcgct
     4621 aaggcgaccc cctcccccgt actgacttct cctataagcg cttctcttcg catagtcacg
     4681 tagctcccac cccaccctct tcctgtgtct cacgcaagtt ttatactcta atatttatat
     4741 ggcttttttt cttcgacaaa aaaataataa aacgtttctt ctgaaaa
//
