LOCUS       NM_019119               4381 bp    mRNA    linear   PRI 08-JUN-2024
DEFINITION  Homo sapiens protocadherin beta 9 (PCDHB9), mRNA.
ACCESSION   NM_019119
VERSION     NM_019119.5
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 4381)
  AUTHORS   Fujiki,Y., Ishikawa,A., Akabane,S., Mukai,S., Maruyama,R.,
            Yamamoto,Y., Kido,A., Katsuya,N., Taniyama,D., Sentani,K., Oue,N.
            and Yasui,W.
  TITLE     Protocadherin B9 Is Associated with Human Esophageal Squamous Cell
            Carcinoma Progression
  JOURNAL   Pathobiology 90 (1), 13-21 (2023)
   PUBMED   35390792
  REMARK    GeneRIF: Protocadherin B9 Is Associated with Human Esophageal
            Squamous Cell Carcinoma Progression.
REFERENCE   2  (bases 1 to 4381)
  AUTHORS   Sekino,Y., Oue,N., Mukai,S., Shigematsu,Y., Goto,K., Sakamoto,N.,
            Sentani,K., Hayashi,T., Teishima,J., Matsubara,A. and Yasui,W.
  TITLE     Protocadherin B9 promotes resistance to bicalutamide and is
            associated with the survival of prostate cancer patients
  JOURNAL   Prostate 79 (2), 234-242 (2019)
   PUBMED   30324761
  REMARK    GeneRIF: A functional analysis showed that PCDHB9 modulated cell
            migration and adhesion.
REFERENCE   3  (bases 1 to 4381)
  AUTHORS   Mukai,S., Oue,N., Oshima,T., Imai,T., Sekino,Y., Honma,R.,
            Sakamoto,N., Sentani,K., Kuniyasu,H., Egi,H., Tanabe,K.,
            Yoshida,K., Ohdan,H. and Yasui,W.
  TITLE     Overexpression of PCDHB9 promotes peritoneal metastasis and
            correlates with poor prognosis in patients with gastric cancer
  JOURNAL   J Pathol 243 (1), 100-110 (2017)
   PUBMED   28671736
  REMARK    GeneRIF: Protocadherin B9 plays an important role in the
            progression rather than the pathogenesis of intestinal-type gastric
            cancers.
REFERENCE   4  (bases 1 to 4381)
  AUTHORS   Frank,M. and Kemler,R.
  TITLE     Protocadherins
  JOURNAL   Curr Opin Cell Biol 14 (5), 557-562 (2002)
   PUBMED   12231349
  REMARK    Review article
REFERENCE   5  (bases 1 to 4381)
  AUTHORS   Vanhalst,K., Kools,P., Vanden Eynde,E. and van Roy,F.
  TITLE     The human and murine protocadherin-beta one-exon gene families show
            high evolutionary conservation, despite the difference in gene
            number
  JOURNAL   FEBS Lett 495 (1-2), 120-125 (2001)
   PUBMED   11322959
REFERENCE   6  (bases 1 to 4381)
  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   7  (bases 1 to 4381)
  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   8  (bases 1 to 4381)
  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   9  (bases 1 to 4381)
  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   10 (bases 1 to 4381)
  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 DA726654.1, BC100672.1,
            AB208959.1, AC244517.2 and AF217749.1.
            
            On May 17, 2019 this sequence version replaced NM_019119.4.
            
            Summary: This gene is a member of the protocadherin beta gene
            cluster, one of three related gene clusters tandemly linked on
            chromosome five. The gene clusters demonstrate an unusual genomic
            organization similar to that of B-cell and T-cell receptor gene
            clusters. The beta cluster contains 16 genes and 3 pseudogenes,
            each encoding 6 extracellular cadherin domains and a cytoplasmic
            tail that deviates from others in the cadherin superfamily. The
            extracellular domains interact in a homophilic manner to specify
            differential cell-cell connections. Unlike the alpha and gamma
            clusters, the transcripts from these genes are made up of only one
            large exon, not sharing common 3' exons as expected. These neural
            cadherin-like cell adhesion proteins are integral plasma membrane
            proteins. Their specific functions are unknown but they most likely
            play a critical role in the establishment and function of specific
            cell-cell neural connections. [provided by RefSeq, Jul 2008].
            
            ##Evidence-Data-START##
            Transcript is intronless :: AF217749.1, SRR1660809.88443.1
                                        [ECO:0000345]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000316105.7/ ENSP00000478606.1
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-158               DA726654.1         35-192
            159-762             BC100672.1         1-604
            763-3087            AB208959.1         363-2687
            3088-3989           AC244517.2         116099-117000
            3990-4378           AF217749.1         3842-4230
            4379-4381           AC244517.2         117390-117392
FEATURES             Location/Qualifiers
     source          1..4381
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="5"
                     /map="5q31.3"
     gene            1..4381
                     /gene="PCDHB9"
                     /gene_synonym="PCDH-BETA9; PCDH3H"
                     /note="protocadherin beta 9"
                     /db_xref="GeneID:56127"
                     /db_xref="HGNC:HGNC:8694"
                     /db_xref="MIM:606335"
     exon            1..4381
                     /gene="PCDHB9"
                     /gene_synonym="PCDH-BETA9; PCDH3H"
                     /inference="alignment:Splign:2.1.0"
     CDS             159..2552
                     /gene="PCDHB9"
                     /gene_synonym="PCDH-BETA9; PCDH3H"
                     /note="protocadherin-3h; PCDH-beta-9"
                     /codon_start=1
                     /product="protocadherin beta-9 precursor"
                     /protein_id="NP_061992.3"
                     /db_xref="CCDS:CCDS75328.1"
                     /db_xref="GeneID:56127"
                     /db_xref="HGNC:HGNC:8694"
                     /db_xref="MIM:606335"
                     /translation="MKTRGFSFPRQRQVLFLFLFWGVSLAGSGFGRYSVTEETEKGSF
                     VVNLAKDLGLAEGELAARGTRVVSDDNKQYLLLDSHTGNLLTNEKLDREKLCGPKEPC
                     MLYFQILMDDPFQIYRAELRVRDINDHSPVFRHKEMVLKISENTAEGTAFRLERAQDP
                     DEGHNSIQNYTISSNSFFHIKISGSDEGMIYPELVLDKALDREEQEELSLTLTALDGG
                     SPSRSGTSTIRIVVLDVNDNVPQFAQALYETQAPENSPVGSLIVKVSAGDADSGVNAE
                     VSYSFFDASEDILTTFQINPFSGEIFLRELLDYELVNSYKINIQAMDGGGLSARCTVL
                     IKVLDSNDNPPELIISSLSNSVAENSPGIVLAVFKIKDRDSGENGKTICYVQDNLPFF
                     LKPSVDNFYILMTEGALDRESKAEYNITITVTDLGTPRLKTEHSITLQVSDVNDNAPA
                     FTQTSYTLFVRENNSPALHIGSVSATDRDSGTNAQVTYSLLPPQDPHLPLASLVSINA
                     DNGHLFALRSLDYEALQAFDFRVGASDRGSPALSSEALVRVLVLDANDNSPFVLYPLQ
                     NGSAPCTELVPRAAEPGYLVTKVVAVDGDSGQNAWLSYQLLKATEPGLFGVWAHNGEV
                     RTARLLSERDAAKHRLVVLVKDNGEPPRSATATLHVLLVDGFSQPYLPLPEAAPAQAQ
                     ADLLTVYLVVALASVSSLFLLSVLLFVAVRLCRRSRAASVGRCSVPEGPFPGHLVDVS
                     GTGTLFQSYQYEVCLTGGSETGEFKFLKPITPHLPPHRGGKEIEENSTLPNSFGFNY"
     regulatory      2566..2571
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PCDHB9"
                     /gene_synonym="PCDH-BETA9; PCDH3H"
                     /note="hexamer: AATAAA"
     polyA_site      2590
                     /gene="PCDHB9"
                     /gene_synonym="PCDH-BETA9; PCDH3H"
                     /note="major polyA site"
     regulatory      4138..4143
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PCDHB9"
                     /gene_synonym="PCDH-BETA9; PCDH3H"
                     /note="hexamer: AATAAA"
     polyA_site      4159
                     /gene="PCDHB9"
                     /gene_synonym="PCDH-BETA9; PCDH3H"
ORIGIN      
        1 actgagacag atgggctgag aagaagagct gtcgagtccc tgattgggaa aggaaaaatt
       61 aaaaacccta gatctctggt acacataagt ctgggtttgc gattgctatt tgtgctgggg
      121 cagtgtgatt gagactgaca ttgaggaaag aagcagctat gaagaccagg gggttcagct
      181 ttccaagaca aaggcaagtc ctgtttcttt ttcttttctg gggagtgtcc ttggcaggtt
      241 ctgggtttgg acgttattcg gtgactgagg aaacagagaa aggatccttt gtggtcaatc
      301 tggcaaagga tctgggacta gcagaggggg agctggctgc aaggggaacc agggtggttt
      361 ccgatgataa caaacaatac ctgctcctgg attcacatac cgggaatttg ctcacaaatg
      421 agaaactgga ccgagagaag ctgtgtggcc ctaaagagcc ctgtatgctg tatttccaaa
      481 ttttaatgga tgatcccttt cagatttacc gggctgagct gagagtcagg gatataaatg
      541 atcactcgcc agtgtttcgg cacaaagaga tggtcttaaa aatatcagaa aatacagctg
      601 aagggacagc atttagacta gaaagagcac aggatccaga tgaaggtcat aacagtatcc
      661 aaaactacac gatcagctcc aactcttttt tccatattaa aattagtggc agtgatgaag
      721 gcatgatata tccagagcta gtgttggaca aagcactgga tcgggaggag caggaagagc
      781 tcagcttaac cctcacagcg ctggatggtg ggtctccatc caggtctggg acctccacta
      841 tacgcattgt ggtcttggat gtcaatgaca atgtcccaca gtttgcccag gctctgtatg
      901 agacccaggc tccagaaaac agtccagtag ggtcccttat tgttaaagtg tctgcaggag
      961 atgcagactc aggagtcaat gcagaagtat cctattcatt ttttgatgct tctgaagata
     1021 ttttaacaac gtttcaaatc aatccttttt ctggggaaat ctttctcaga gaattgcttg
     1081 attatgagtt agtaaattct tacaaaataa atatacaggc aatggacggc ggaggccttt
     1141 ctgcaagatg tacagttttg ataaaagtat tagattccaa tgacaatcct cctgaactga
     1201 tcatatcatc actttccaac tctgttgctg aaaactctcc tgggatagta ttggctgttt
     1261 ttaagattaa agacagagac tccggagaaa atggaaagac aatttgctat gttcaagata
     1321 atctgccttt ttttctgaaa ccgtctgttg acaattttta catcctaatg actgaaggtg
     1381 cactggacag agagagcaaa gctgagtaca acatcaccat caccgtcact gacttgggga
     1441 cacccaggct gaaaaccgag cacagcataa ccctgcaggt ctccgacgtc aatgacaacg
     1501 cccccgcctt cacccaaacc tcctacaccc tgttcgtccg ggagaacaac agccccgccc
     1561 tgcacatcgg cagtgtcagc gccacagaca gagactcagg caccaacgcc caggtcacct
     1621 actcgctgct gccgccccag gacccacacc tgcccctcgc ctccctggtc tccatcaacg
     1681 cggacaatgg ccacctgttt gccctcaggt cgctggacta cgaggccctg caggctttcg
     1741 acttccgcgt gggcgcctca gaccgcggct ccccggcttt gagcagcgag gcgctggtgc
     1801 gcgtactggt gctggacgcc aacgacaact cgcccttcgt gctgtacccg ctgcagaacg
     1861 gctccgcgcc ctgcaccgag ctggtgcccc gggcggccga gccgggctac ctggtgacca
     1921 aggtggtggc ggtggacggc gactcgggcc agaacgcctg gctgtcgtac cagctgctca
     1981 aggccacgga gcccgggctg ttcggtgtgt gggcgcacaa tggggaggtg cgcaccgcca
     2041 ggctgctgag cgagcgcgac gcggccaagc acaggctggt ggtgcttgtc aaggacaatg
     2101 gcgagcctcc tcgctcggcc accgccacgc tgcacgtgct cctggtggac ggcttctccc
     2161 agccctacct gcctctcccg gaggcggccc cggcccaggc ccaggccgac ttgctcaccg
     2221 tctacctggt ggtggcgttg gcctcggtgt cttcgctctt cctcctctcg gtgctcctgt
     2281 tcgtggcggt gcggctgtgc aggaggagca gggcggcctc ggtgggtcgc tgctcggtgc
     2341 ccgagggtcc ttttccaggg catctggtgg acgtgagcgg caccgggacc ctgttccaga
     2401 gctaccagta cgaggtgtgt ctgactggag gttcagagac cggcgagttc aagttcttga
     2461 agccgattac cccccacctc ccgccccata ggggtgggaa agaaatagag gaaaattcta
     2521 ctctccccaa tagctttgga tttaattatt gaaaggaacc cacttaataa agacatttac
     2581 ttctttaata tattcttgtt ggctaactaa attgtgtatg cccaccacaa agaaggtact
     2641 attttttgtt tgattcatct tcaactttgc gtattatgct taacttcaca agttaacttt
     2701 ttcttatttt gtatcctgat gaggcatttc ttactagaat cccataagtg aaatataata
     2761 tttttcaaag ttgatatcat ttaaaaattt ttggtcgttt taaatgtctt tattgacttt
     2821 aaattcattg cctctacatt attcattagt tcttcttttc ctaaaacttt ttacttgtta
     2881 aaatagtctg ctgcatgtaa tatgtgcttt tactatttga tatttcttct atttttcttt
     2941 tgaaaccggt gttcttattg gtttgccatc cttgttcatt acaactgttt tttgtttgtt
     3001 tgtttgtttt ttggtttgtt tgtttttttt ttttttgaga cggagtctcg ctctgtcgcc
     3061 caggctggag tgcagtggcg cgatctcagc tcactgcaac ctccgcctcc caggttcaag
     3121 cgattctcct gcctcagcct ccagagtatc tgggactaca gttgcatgtc accacgttcg
     3181 gctaattttt gtattttcag tagagacggg tttcatcatg gtggccagga tggtctatct
     3241 cttgacctcg tgatccaccc cactcagcct cccaaattgc tgggatttac aggcatgagc
     3301 caccgcaccc agcctacaat aattttctta aactttacct tttattttaa agttctagtt
     3361 tcccggcatt gatagttccc tatttgaaat ataatgtttc tcttgtaagt gatatgataa
     3421 ataaacccct aattagcctt agaagaaaaa ccactgcaag atattaagcg tgtgtaaatg
     3481 ggctttagtc tggaaaccaa aaaaaaaaaa aaaatttagt cattctatag gatcatgtga
     3541 aaatatttaa tttgctcctt ttaattctgt ataaacaaat cagaggttcc tgaggttcct
     3601 gttaaatttt taatggctaa tagcccagtg ccatccagtt gaaaaaacaa cagcaatcac
     3661 aaagtagagg tttatattgt gcggctttta tattcagcta ttagagtgtt attggtagtg
     3721 tctagccttt tcctccacga cattccttga cttaatccat ttgggcctat tatagacaaa
     3781 atagagcttc tttctagata taaggtcttt gaggcagggc tcagtggctc attcctgtaa
     3841 tcccagcact ttgggaggcc aaggcgggca gatcacctta ggtcacgagt ttgagaccag
     3901 cctgaccaac gttaagtaac cccgtcttta ctaaaaatac aaaattagcc aggcatggtg
     3961 gcacatgctt gtaatcccag ctactcggga ggctgaggca ggagaatcgc ttgaacccag
     4021 gaggtggaag ttgctttgag ccgagattgc accattgtac tccagcctgg gcaataagag
     4081 caaaactcca tcaaaataaa ataaaataaa atataaaata acttaaaaag aactttgaat
     4141 aaaattctat gaaaaaagac actagaatgc tgttcttaat tttaatagtg ttaagatagg
     4201 tgttagtgtg gtctgttctt tacctccctt tatttggtgc agagaagtta gatcctgcta
     4261 aatttcaatt aagaggggac cttaaaataa ggatcaatct cttatttaac cctgtaagtt
     4321 actttaaagc taatacaaga aaaacaaaga caagtgaaag taaggaaaca gaaattgcaa
     4381 a
//
