LOCUS       NM_018910               5339 bp    mRNA    linear   PRI 04-APR-2024
DEFINITION  Homo sapiens protocadherin alpha 7 (PCDHA7), transcript variant 1,
            mRNA.
ACCESSION   NM_018910
VERSION     NM_018910.3
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 5339)
  AUTHORS   Fox,C.S., Liu,Y., White,C.C., Feitosa,M., Smith,A.V.,
            Heard-Costa,N., Lohman,K., Johnson,A.D., Foster,M.C.,
            Greenawalt,D.M., Griffin,P., Ding,J., Newman,A.B., Tylavsky,F.,
            Miljkovic,I., Kritchevsky,S.B., Launer,L., Garcia,M.,
            Eiriksdottir,G., Carr,J.J., Gudnason,V., Harris,T.B., Cupples,L.A.
            and Borecki,I.B.
  CONSRTM   GIANT Consortium; MAGIC Consortium; GLGC Consortium
  TITLE     Genome-wide association for abdominal subcutaneous and visceral
            adipose reveals a novel locus for visceral fat in women
  JOURNAL   PLoS Genet 8 (5), e1002695 (2012)
   PUBMED   22589738
REFERENCE   2  (bases 1 to 5339)
  AUTHORS   Wu,C., Ma,M.H., Brown,K.R., Geisler,M., Li,L., Tzeng,E., Jia,C.Y.,
            Jurisica,I. and Li,S.S.
  TITLE     Systematic identification of SH3 domain-mediated human
            protein-protein interactions by peptide array target screening
  JOURNAL   Proteomics 7 (11), 1775-1785 (2007)
   PUBMED   17474147
REFERENCE   3  (bases 1 to 5339)
  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 5339)
  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 5339)
  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 5339)
  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 5339)
  AUTHORS   Sugino,H., Hamada,S., Yasuda,R., Tuji,A., Matsuda,Y., Fujita,M. and
            Yagi,T.
  TITLE     Genomic organization of the family of CNR cadherin genes in mice
            and humans
  JOURNAL   Genomics 63 (1), 75-87 (2000)
   PUBMED   10662547
REFERENCE   8  (bases 1 to 5339)
  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
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC005609.1, AF152315.1 and
            AC010223.6.
            
            On Nov 24, 2018 this sequence version replaced NM_018910.2.
            
            Summary: This gene is a member of the protocadherin alpha gene
            cluster, one of three related gene clusters tandemly linked on
            chromosome five that demonstrate an unusual genomic organization
            similar to that of B-cell and T-cell receptor gene clusters. The
            alpha gene cluster is composed of 15 cadherin superfamily genes
            related to the mouse CNR genes and consists of 13 highly similar
            and 2 more distantly related coding sequences. The tandem array of
            15 N-terminal exons, or variable exons, are followed by downstream
            C-terminal exons, or constant exons, which are shared by all genes
            in the cluster. The large, uninterrupted N-terminal exons each
            encode six cadherin ectodomains while the C-terminal exons encode
            the cytoplasmic domain. These neural cadherin-like cell adhesion
            proteins are integral plasma membrane proteins that most likely
            play a critical role in the establishment and function of specific
            cell-cell connections in the brain. Alternative splicing has been
            observed and additional variants have been suggested but their
            full-length nature has yet to be determined. [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 :: SRR1660805.191451.1,
                                           SRR1803611.271585.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2145245, SAMEA2145743
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000525929.2/ ENSP00000436426.1
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-115               AC005609.1         57715-57829         c
            116-5336            AF152315.1         1-5221
            5337-5339           AC010223.6         50266-50268         c
FEATURES             Location/Qualifiers
     source          1..5339
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="5"
                     /map="5q31.3"
     gene            1..5339
                     /gene="PCDHA7"
                     /gene_synonym="CNR4; CNRN4; CNRS4; CRNR4; PCDH-ALPHA7"
                     /note="protocadherin alpha 7"
                     /db_xref="GeneID:56141"
                     /db_xref="HGNC:HGNC:8673"
                     /db_xref="MIM:606313"
     exon            1..2470
                     /gene="PCDHA7"
                     /gene_synonym="CNR4; CNRN4; CNRS4; CRNR4; PCDH-ALPHA7"
                     /inference="alignment:Splign:2.1.0"
     CDS             116..2929
                     /gene="PCDHA7"
                     /gene_synonym="CNR4; CNRN4; CNRS4; CRNR4; PCDH-ALPHA7"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; KIAA0345-like 7; ortholog to mouse CNR4;
                     PCDH-alpha-7"
                     /codon_start=1
                     /product="protocadherin alpha-7 isoform 1 precursor"
                     /protein_id="NP_061733.1"
                     /db_xref="CCDS:CCDS54918.1"
                     /db_xref="GeneID:56141"
                     /db_xref="HGNC:HGNC:8673"
                     /db_xref="MIM:606313"
                     /translation="MVCPNGYDPGGRHLLLFIIILAAWEAGRGQLHYSVPEEAKHGNF
                     VGRIAQDLGLELAELVPRLFRAVCKFRGDLLEVNLQNGILFVNSRIDREELCGRSAEC
                     SIHLEVIVERPLQVFHVDVEVKDINDNPPVFPATQRNLFIAESRPLDSRFPLEGASDA
                     DIGENALLTYRLSPNEYFFLDVPTSNQQVKPLGLVLRKLLDREETPELHLLLTATDGG
                     KPELTGTVQLLITVLDNNDNAPVFDRTLYTVKLPENVSIGTLVIHPNASDLDEGLNGD
                     IIYSFSSDVSPDIKSKFHMDPLSGAITVIGHMDFEESRAHKIPVEAVDKGFPPLAGHC
                     TVLVEVVDVNDNAPQLTLTSLSLPIPEDAQPGTVITLISVFDRDFGVNGQVTCSLTPR
                     VPFKLVSTFKNYYSLVLDSALDRESVSAYELVVTARDGGSPSLWATASVSVEVADVND
                     NAPAFAQPEYTVFVKENNPPGCHIFTVSAGDADAQKNALVSYSLVELRVGERALSSYV
                     SVHAESGKVYALQPLDHEELELLQFQVSARDAGVPPLGSNVTLQVFVLDENDNAPALL
                     APRVGGTGGAVRELVPRSVGAGHVVAKVRAVDADSGYNAWLSYELQPVAAGASIPFRV
                     GLYTGEISTTRALDETDAPRHRLLVLVKDHGEPSLTATATVLVSLVESGQAPKASSRA
                     SLGIAGPETELVDVNVYLIIAICAVSSLLVLTLLLYTALRCSAPSSEGACSLVKPTLV
                     CSSAVGSWSFSQQRRQRVCSGEGPPKTDLMAFSPSLPQGPSSTDNPRQPNPDWRYSAS
                     LRAGMHSSVHLEEAGILRAGPGGPDQQWPTVSSATPEPEAGEVSPPVGAGVNSNSWTF
                     KYGPGNPKQSGPGELPDKFIIPGSPAIISIRQEPTNSQIDKSDFITFGKKEETKKKKK
                     KKKGNKTQEKKEKGNSTTDNSDQ"
     exon            2471..2529
                     /gene="PCDHA7"
                     /gene_synonym="CNR4; CNRN4; CNRS4; CRNR4; PCDH-ALPHA7"
                     /inference="alignment:Splign:2.1.0"
     exon            2530..2618
                     /gene="PCDHA7"
                     /gene_synonym="CNR4; CNRN4; CNRS4; CRNR4; PCDH-ALPHA7"
                     /inference="alignment:Splign:2.1.0"
     exon            2619..5339
                     /gene="PCDHA7"
                     /gene_synonym="CNR4; CNRN4; CNRS4; CRNR4; PCDH-ALPHA7"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4550..4555
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PCDHA7"
                     /gene_synonym="CNR4; CNRN4; CNRS4; CRNR4; PCDH-ALPHA7"
                     /note="hexamer: AGTAAA"
     polyA_site      4573
                     /gene="PCDHA7"
                     /gene_synonym="CNR4; CNRN4; CNRS4; CRNR4; PCDH-ALPHA7"
     regulatory      5319..5324
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PCDHA7"
                     /gene_synonym="CNR4; CNRN4; CNRS4; CRNR4; PCDH-ALPHA7"
                     /note="hexamer: AATGAA"
     polyA_site      5339
                     /gene="PCDHA7"
                     /gene_synonym="CNR4; CNRN4; CNRS4; CRNR4; PCDH-ALPHA7"
                     /note="major polyA site"
ORIGIN      
        1 actctttgga tgcacaacaa tggccacaca tcgagattga aatgaaggga taaaaacatt
       61 cctataaatt cgaaggcaag ttttgctgac tagaaaaaca agccaataat ttgaaatggt
      121 gtgcccgaat ggatacgacc cagggggccg acatctactg ctgtttatta taattctagc
      181 agcttgggag gcagggagag gccagctcca ctactcggtc cccgaggagg ctaaacatgg
      241 caacttcgtg ggccgcatcg cgcaggacct ggggctggag ctggcggagc tggtgccgcg
      301 cctgttccgg gcggtgtgca aattccgtgg ggatcttctg gaggtaaatc tgcagaatgg
      361 cattttgttt gtgaattctc ggatcgaccg cgaggagctg tgcgggcgga gcgcggagtg
      421 cagcatccac ctggaggtga tcgtggaaag gccgctgcag gttttccatg tggacgtgga
      481 ggtgaaggac attaacgaca accctccggt gttcccagcg acacaaagga atctgttcat
      541 cgcggaatcc aggccgcttg actctcggtt tccactagag ggcgcgtccg atgcagatat
      601 cggggagaac gccctgctca cttacagact gagccccaat gagtatttct tcctggacgt
      661 gccaaccagc aaccagcagg taaaacctct tggacttgta ttacggaaac ttttagacag
      721 agaagaaact ccggagcttc atttattgct cacggccacc gatggaggca aacccgagct
      781 gactggcacc gttcaattac tcatcacggt actggacaac aatgacaatg ccccagtgtt
      841 cgacagaacc ctgtatacgg tgaaattacc agaaaacgtt tctatcggaa cgctggtgat
      901 tcaccccaat gcctcagatt tagacgaagg cttgaatggg gatattattt actccttctc
      961 cagtgatgtt tctccagata taaaatccaa gttccacatg gaccccttaa gtggggcaat
     1021 cacagtgata ggacatatgg attttgaaga aagtagagca cacaagatcc cagtcgaggc
     1081 tgtcgataaa ggcttcccac ccctggctgg tcattgtaca gttcttgtgg aagttgtgga
     1141 tgtaaatgac aatgctccac agttgactct cacttccctg tctctcccta ttccagagga
     1201 cgcccaacca ggtaccgtca tcacattgat tagcgtgttt gaccgagatt ttggagtcaa
     1261 cggacaggtt acctgctccc tgacgccccg cgttcccttc aagttggtgt ccaccttcaa
     1321 gaattactat tcattggtgc tggacagcgc tctggaccgc gagagtgtgt ccgcctatga
     1381 gctggtggtt accgcgcggg acgggggctc gccttctctg tgggccactg ctagcgtgtc
     1441 cgtggaggtg gccgacgtga acgacaacgc cccggcgttc gcgcagcccg agtatacggt
     1501 gttcgtgaag gagaacaacc cgccgggctg ccacatcttc actgtgtcgg cgggggacgc
     1561 ggacgcgcag aagaacgcgc tggtgtccta ctcgctggtg gagctgcggg tgggcgagcg
     1621 cgcgctgtcg agctacgtgt cagtgcacgc ggagagcggc aaggtgtacg cgctgcagcc
     1681 gttggaccac gaggagctgg agctgttgca gttccaggtg agcgcgcgcg atgcgggcgt
     1741 gccgcctctg ggcagcaacg tgacgctgca ggtgttcgtg ctggacgaga acgacaacgc
     1801 gccggcactg ctggcgcctc gggtgggtgg cactggtggc gcagtgagag agcttgtgcc
     1861 gcggtctgtg ggcgcgggcc atgtggtggc gaaggtacgt gcagttgacg ctgactcagg
     1921 ctacaacgcg tggctttcgt atgagttgca accggtggcg gccggtgcga gcatcccgtt
     1981 ccgcgtgggg ctgtacactg gtgagatcag cacgacacga gccctagatg agacggacgc
     2041 accgcgccac cgccttctgg tgcttgtgaa ggaccacggg gagccctcgc tgacagccac
     2101 agccaccgtg ctggtgtcgc tggtggaaag cggccaggca ccaaaggcgt cgtcgcgggc
     2161 atcgttgggc attgcaggcc cagagaccga gctggtggat gtcaacgtgt acctgatcat
     2221 cgccatctgc gcggtgtcca gtctgttggt gcttaccctg ctgctgtaca cggcgttgcg
     2281 gtgctcagcg ccgtcctctg agggcgcatg tagtttggta aagcccactc tggtgtgctc
     2341 cagcgcggtg gggagctggt cattctccca gcagaggcgg cagagggtgt gctctgggga
     2401 gggcccaccc aagacagacc tcatggcctt cagtcccagc cttcctcagg gtccatcctc
     2461 tacagacaat ccacgacagc ccaaccctga ctggcgttac tctgcctccc tgagagcagg
     2521 catgcacagc tctgtgcacc tagaggaggc tggcattcta cgggctggtc caggagggcc
     2581 tgatcagcag tggccaacag tatccagtgc aacaccagaa ccagaggcag gagaagtgtc
     2641 ccctccagtc ggtgcgggtg tcaacagcaa cagctggacc tttaaatacg gaccaggcaa
     2701 ccccaaacaa tccggtcccg gtgagttgcc cgacaaattc attatcccag gatctcctgc
     2761 aatcatctcc atccggcagg agcctactaa cagccaaatt gacaaaagtg acttcataac
     2821 cttcggcaaa aaggaggaga ccaagaaaaa gaagaaaaag aagaagggta acaagaccca
     2881 ggagaaaaaa gagaaaggga acagcacgac tgacaacagt gaccagtgag gtcctcaaat
     2941 ggaaacaagc cacttagcca gtttttgtaa taatggcaaa tctctcccat gtagcaattc
     3001 cctgctcctt tttcctatct acatgagccc tcttagagac ctcagaaatc tgcagaaagt
     3061 tccctgtgtc tgtctagaac gcatttaaca ggttttgtcg taaaagcttt actaagtctg
     3121 gtgttaactc tttctctcca ctctggcttg ttttcagaac ctaaaaagca gacccaagtt
     3181 tcctttctcc tccgccgcaa aggagaggct tcccagcccc gccagtgaga ggttggactc
     3241 tctgccctgt gctccgggga tcctgtcttg atgacacttg cagggcaggc tgaaaagttt
     3301 tgagattgag cagcttggga gtttgtggcc actgggtatg tgtggctacc gcgggtatgc
     3361 gagtgccaga tattggctga gacgagccag cttagactaa ttggtacaag gaaggcaaga
     3421 aaacaaagac aaataaacag cggaagttat cagtatggag gggaagtgta aacttaaagg
     3481 gaccagactt tctaaatctt acaactcaag aggtggcagc caccctctag gagacaaaac
     3541 tacccccact gacaaggctt taggagaccc taaagtctgt tggctgtgac gtcattatac
     3601 ctaaaatctg catcatacct gcaagccaac agttcagtgt tttaacagag aaccaccctg
     3661 ggaaacagaa gcagatctga tgtgtttcct atacatgtcc tgtgctcact ttattaaaaa
     3721 ttcttttgca cacaatgttt atgaaaaggc cagatccttt tccaatactt atgcaaaagc
     3781 aaaagaaaac cccgacacct cacctttcgc tgtttgttgt ttcatagatt tatttaaaaa
     3841 aagagaaagt ctatagctat aaatctttaa agagaaatat gaatacaatt cccctaaact
     3901 ctcctcaaaa gagaattcag tctacagcca tttaaatgat cattgctgct acagaagtgc
     3961 tttaagagaa ttgcctgaaa catctgtatt atatcggcca cctgccaatc acagctttac
     4021 tctttcaggt cactctgggg ctgcctcttg catgtattac taaataaaat gatctctctt
     4081 tctctctctc tctctctttt ctaagaaaca attatgtgca ctttgataca caaccttctc
     4141 taaccaacta tatatcaaga cccaaaaatt gaagaaaaat attgttttct catacagtga
     4201 gcagattttt caatctacta attctgtgac ttgtcttggt gtgctagcct acaccttctc
     4261 tttggtttag ttttcctttt ctataacact ctgaattgct aatcttacta acacctatga
     4321 tgttacctga aatcaatctc ccatatgtat gctgtatgct atgctaagac tcctgaaata
     4381 tacttactct gtgcttgtgt atgtgaatgt taatgcaact attacctaga gtgaacttta
     4441 agctttattg ttgaatgtaa ttccattata tttccttttg tacacctgtg aaaaagtgga
     4501 gtagtgtttt tttaaccatt gttaatcagc ttttgtgtat gaaagacaca gtaaaatttc
     4561 tttcttaaat caagatactg gtgattcaag gaattttatt tatggtccag ccaagagcca
     4621 tctcgtgcca agacttctgc tggcaaggga atggataaag ctgttttgtt ctagtaacaa
     4681 ttttggaatg aatactgaca atattccatg agggtgtgca agcacaaatt ttaccaatct
     4741 gacctctttg aagttgcaga atgctttgaa attctaatgg tatctgaaat atcagctcat
     4801 agaaagtaac aaaatttgct gtcaccttaa ataagacatt ttaattttgt tataatgtac
     4861 aatttagaag tttgattaat tatattatct atttaggcat taatataaaa gaggtaggag
     4921 tctgttattt aaaaaaagca ttaaatttaa aaaaaaactg tcttgtctac ttttagcttc
     4981 attctcccat attttgaagg gtgtgtaact tcagctctgc aggattgcat ggggtaaaac
     5041 ttgttaccaa cacatgtgaa ccattgctac attgtaggtt gtgatcattt tgccccactg
     5101 aagcccatgt atctgacctt acgtgccttt tgaactagga gaatcgggct aatttattaa
     5161 tgatgataat tataatgtat ctgtacagca ctttttacat ttgcgaagtg ctttccaatc
     5221 catgttagtt actagttatt acagctgtaa ggataaaaca cgtcatgtgg attcattttg
     5281 aattggtgct attggtattt cctctgttat tgctaataaa tgaaaatggt ggtatgaaa
//
