LOCUS       NM_001347684            2250 bp    mRNA    linear   PRI 06-APR-2024
DEFINITION  Homo sapiens uroplakin 3B (UPK3B), transcript variant 4, mRNA.
ACCESSION   NM_001347684
VERSION     NM_001347684.2
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 2250)
  AUTHORS   Moayyeri,A., Hsu,Y.H., Karasik,D., Estrada,K., Xiao,S.M.,
            Nielson,C., Srikanth,P., Giroux,S., Wilson,S.G., Zheng,H.F.,
            Smith,A.V., Pye,S.R., Leo,P.J., Teumer,A., Hwang,J.Y., Ohlsson,C.,
            McGuigan,F., Minster,R.L., Hayward,C., Olmos,J.M.,
            Lyytikainen,L.P., Lewis,J.R., Swart,K.M., Masi,L., Oldmeadow,C.,
            Holliday,E.G., Cheng,S., van Schoor,N.M., Harvey,N.C., Kruk,M., del
            Greco,M. F, Igl,W., Trummer,O., Grigoriou,E., Luben,R., Liu,C.T.,
            Zhou,Y., Oei,L., Medina-Gomez,C., Zmuda,J., Tranah,G., Brown,S.J.,
            Williams,F.M., Soranzo,N., Jakobsdottir,J., Siggeirsdottir,K.,
            Holliday,K.L., Hannemann,A., Go,M.J., Garcia,M., Polasek,O.,
            Laaksonen,M., Zhu,K., Enneman,A.W., McEvoy,M., Peel,R., Sham,P.C.,
            Jaworski,M., Johansson,A., Hicks,A.A., Pludowski,P., Scott,R.,
            Dhonukshe-Rutten,R.A., van der Velde,N., Kahonen,M., Viikari,J.S.,
            Sievanen,H., Raitakari,O.T., Gonzalez-Macias,J., Hernandez,J.L.,
            Mellstrom,D., Ljunggren,O., Cho,Y.S., Volker,U., Nauck,M.,
            Homuth,G., Volzke,H., Haring,R., Brown,M.A., McCloskey,E.,
            Nicholson,G.C., Eastell,R., Eisman,J.A., Jones,G., Reid,I.R.,
            Dennison,E.M., Wark,J., Boonen,S., Vanderschueren,D., Wu,F.C.,
            Aspelund,T., Richards,J.B., Bauer,D., Hofman,A., Khaw,K.T.,
            Dedoussis,G., Obermayer-Pietsch,B., Gyllensten,U.,
            Pramstaller,P.P., Lorenc,R.S., Cooper,C., Kung,A.W., Lips,P.,
            Alen,M., Attia,J., Brandi,M.L., de Groot,L.C., Lehtimaki,T.,
            Riancho,J.A., Campbell,H., Liu,Y., Harris,T.B., Akesson,K.,
            Karlsson,M., Lee,J.Y., Wallaschofski,H., Duncan,E.L., O'Neill,T.W.,
            Gudnason,V., Spector,T.D., Rousseau,F., Orwoll,E., Cummings,S.R.,
            Wareham,N.J., Rivadeneira,F., Uitterlinden,A.G., Prince,R.L.,
            Kiel,D.P., Reeve,J. and Kaptoge,S.K.
  TITLE     Genetic determinants of heel bone properties: genome-wide
            association meta-analysis and replication in the GEFOS/GENOMOS
            consortium
  JOURNAL   Hum Mol Genet 23 (11), 3054-3068 (2014)
   PUBMED   24430505
REFERENCE   2  (bases 1 to 2250)
  AUTHORS   Kanamori-Katayama,M., Kaiho,A., Ishizu,Y., Okamura-Oho,Y., Hino,O.,
            Abe,M., Kishimoto,T., Sekihara,H., Nakamura,Y., Suzuki,H.,
            Forrest,A.R. and Hayashizaki,Y.
  TITLE     LRRN4 and UPK3B are markers of primary mesothelial cells
  JOURNAL   PLoS One 6 (10), e25391 (2011)
   PUBMED   21984916
  REMARK    GeneRIF: LRRN4 was only detected in primary mesothelial cells, but
            MSLN and UPK3B were also detected in other cell types.
REFERENCE   3  (bases 1 to 2250)
  AUTHORS   Foot,N.J., Dalton,H.E., Shearwin-Whyatt,L.M., Dorstyn,L., Tan,S.S.,
            Yang,B. and Kumar,S.
  TITLE     Regulation of the divalent metal ion transporter DMT1 and iron
            homeostasis by a ubiquitin-dependent mechanism involving Ndfips and
            WWP2
  JOURNAL   Blood 112 (10), 4268-4275 (2008)
   PUBMED   18776082
REFERENCE   4  (bases 1 to 2250)
  AUTHORS   Garcia-Espana,A., Chung,P.J., Zhao,X., Lee,A., Pellicer,A., Yu,J.,
            Sun,T.T. and Desalle,R.
  TITLE     Origin of the tetraspanin uroplakins and their co-evolution with
            associated proteins: implications for uroplakin structure and
            function
  JOURNAL   Mol Phylogenet Evol 41 (2), 355-367 (2006)
   PUBMED   16814572
REFERENCE   5  (bases 1 to 2250)
  AUTHORS   Deng,F.M., Liang,F.X., Tu,L., Resing,K.A., Hu,P., Supino,M.,
            Hu,C.C., Zhou,G., Ding,M., Kreibich,G. and Sun,T.T.
  TITLE     Uroplakin IIIb, a urothelial differentiation marker, dimerizes with
            uroplakin Ib as an early step of urothelial plaque assembly
  JOURNAL   J Cell Biol 159 (4), 685-694 (2002)
   PUBMED   12446744
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC007078.4 and AC004980.5.
            
            On Jun 2, 2019 this sequence version replaced NM_001347684.1.
            
            Summary: UPK3B is a minor component of the apical plaques of
            mammalian urothelium that binds and dimerizes with uroplakin-1b
            (UPK1B; MIM 602380), one of the major conserved urothelium membrane
            proteins. The other major conserved integral membrane proteins of
            urothelial plaques are UPK1A (MIM 611557), UPK2 (MIM 611558), and
            UPK3A (MIM 611559) (Deng et al., 2002 [PubMed 12446744]).[supplied
            by OMIM, Mar 2008].
            
            Transcript Variant: This variant (4) is alternatively spliced at
            the 5' end, differs in the 3' UTR and contains an additional
            internal exon, which causes a frame-shift compared to variant 1.
            The resulting isoform (d) lacks a protein segment in the N-terminal
            region and has a distinct C-terminus compared to isoform a. This
            variant is annotated on the GRCh38 primary human reference genome
            assembly.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR5189667.139217.1, BM008901.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2142363, SAMEA2144333
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000334348.8/ ENSP00000334938.3
            RefSeq Select criteria :: based on manual assertion, conservation,
                                      expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-186               AC007078.4         4720-4905           c
            187-336             AC007078.4         4405-4554           c
            337-562             AC007078.4         3575-3800           c
            563-642             AC007078.4         2294-2373           c
            643-772             AC007078.4         1381-1510           c
            773-1184            AC007078.4         1-412               c
            1185-2250           AC004980.5         1498-2563
FEATURES             Location/Qualifiers
     source          1..2250
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="7"
                     /map="7q11.23"
     gene            1..2250
                     /gene="UPK3B"
                     /gene_synonym="P35; UP3B; UPIIIB"
                     /note="uroplakin 3B"
                     /db_xref="GeneID:105375355"
                     /db_xref="HGNC:HGNC:21444"
                     /db_xref="MIM:611887"
     exon            1..186
                     /gene="UPK3B"
                     /gene_synonym="P35; UP3B; UPIIIB"
                     /inference="alignment:Splign:2.1.0"
     CDS             102..932
                     /gene="UPK3B"
                     /gene_synonym="P35; UP3B; UPIIIB"
                     /note="isoform d precursor is encoded by transcript
                     variant 4; uroplakin-3b; uroplakin IIIb"
                     /codon_start=1
                     /product="uroplakin-3b isoform d precursor"
                     /protein_id="NP_001334613.1"
                     /db_xref="CCDS:CCDS87512.1"
                     /db_xref="GeneID:105375355"
                     /db_xref="HGNC:HGNC:21444"
                     /db_xref="MIM:611887"
                     /translation="MGLPWGQPHLGLQMLLLALNCLRPSLSLELVPYTPQITAWDLEG
                     KVTATTFSLEQPRCVFDGLASASDTVWLVVAFSNASRGFQNPETLADIPASPQLLTDG
                     HYMTLPLSPDQLPCGDPMAGSGGAPVLRVGHDHGCHQQPFCNAPLPGPGPYRVKFLLM
                     DTRGSPRAETKWSDPITLHQGKTPGSIDTWPGRRSGSMIVITSILSSLAGLLLLAFLA
                     ASTMRFSSLWWPEEAPEQLRIGSFMGKRYMTHHIPPREAATLPVGCKPGLDPLPSLSP
                     "
     exon            187..336
                     /gene="UPK3B"
                     /gene_synonym="P35; UP3B; UPIIIB"
                     /inference="alignment:Splign:2.1.0"
     exon            337..562
                     /gene="UPK3B"
                     /gene_synonym="P35; UP3B; UPIIIB"
                     /inference="alignment:Splign:2.1.0"
     exon            563..642
                     /gene="UPK3B"
                     /gene_synonym="P35; UP3B; UPIIIB"
                     /inference="alignment:Splign:2.1.0"
     exon            643..772
                     /gene="UPK3B"
                     /gene_synonym="P35; UP3B; UPIIIB"
                     /inference="alignment:Splign:2.1.0"
     exon            773..2250
                     /gene="UPK3B"
                     /gene_synonym="P35; UP3B; UPIIIB"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2229..2234
                     /regulatory_class="polyA_signal_sequence"
                     /gene="UPK3B"
                     /gene_synonym="P35; UP3B; UPIIIB"
                     /note="hexamer: AATAAA"
     polyA_site      2250
                     /gene="UPK3B"
                     /gene_synonym="P35; UP3B; UPIIIB"
                     /note="major polyA site"
ORIGIN      
        1 agcctgatta accagcttct ccagggccaa gctgttgggg gtgaggtgca gcccgaagca
       61 gccagaccag cccctgagcc tcccgggtgc tggcagctgt catggggcta ccctgggggc
      121 agcctcacct agggctgcag atgctcctcc tggcgttgaa ctgtctccgg cccagcctga
      181 gcctggagct ggtgccctac acaccacaga taacagcttg ggacctggaa gggaaggtca
      241 cagccaccac cttctccctg gagcagccgc gctgtgtctt cgatgggctt gccagcgcca
      301 gcgataccgt ctggctcgtg gtggccttca gcaatgcctc caggggcttc cagaacccgg
      361 agacactggc tgacattccg gcctccccac agctgctgac cgatggccac tacatgacgc
      421 tgcccctgtc tccggaccag ctgccctgtg gcgaccccat ggcgggcagc ggaggcgccc
      481 ccgtgctgcg ggtgggccat gaccacggct gccaccagca gcccttctgc aacgcgcccc
      541 tccctggccc tggaccctat cgggtgaagt tcctcctgat ggacaccagg ggctcaccca
      601 gggctgagac caagtggtca gaccccatca ctctccacca agggaagacc cccggatcca
      661 tcgacacctg gccagggcgg cgaagtggca gcatgatcgt cattacctcc atcctctctt
      721 ctctggccgg cctcctactc ttggccttct tggcagcctc taccatgcgc ttctccagcc
      781 tgtggtggcc ggaggaggcc ccggagcagc tgcggatcgg ctccttcatg ggcaagcgct
      841 acatgaccca ccacatccca cccagagagg ccgccacact gccggtgggc tgcaagcctg
      901 gcctggaccc cctccccagc ctcagcccct agcctggcct ctttgcatgg ggctggggga
      961 gatggggcgc tgggagtgag tgcatggtgc tttgtcccag ctcctgcacc cacaggcccc
     1021 ctcagggctc cttgcctttc ccccccacca gcacaccccg taccctgcct ggaatcccag
     1081 caccagcccc cctgcctctc ctctgccttt ctggtttctc tccctctcca agcatctgta
     1141 agttgcactc aggagggttt aggggagggc catgggcagg ctggataccc agtccccacc
     1201 tccatcccca cctctgtctc acctgacctc ctgcgaggga ggctggagac tgtgtggaca
     1261 ggccgccctg accgcaagct tccagaccct gggaggaggc ctgcagagga ctgtgctttg
     1321 cctgatgcag ggagctgggc ccatcctggg gcctatgaga cctgagccac cctccgtccc
     1381 ccatcccaca catcagtggc tgggcggggt gaggattcag aggcatctct actgcccctg
     1441 ggcacagcac ctttctgaga gtgggactct ccatggtcat ctgactacca attctggcca
     1501 ccacctccaa ccctcttgtg catatggatg gctctagccc ttatccaccc cctcaagcat
     1561 ttattaagca tctgctgtat gctacataca gtgttagact tggggcttca ggcatagccg
     1621 gtcctgacct tggggagatg ccttctctag acctgagacg accacgtgtc cagatgtgac
     1681 ctgttgctgt cgggggtcta tcaggccctt agaccgtcac cccagtaggc tctccaggac
     1741 ccaggagcct ccatcacctg gaaggaccct ctgtgcaaaa cctcaagcgt ccatctgtgc
     1801 acaaggccgg tggttcccgt cgtcgccact cggggtcgcc ggtgagccgc agccaggccg
     1861 cctcacggcc agtgtgcatg ctcgctgcta ttcgctgccc cttctgcctc cgaggcggta
     1921 gcagatgcca cgttggcggg gtcggtgaag gtcaggactc taggcctccc tccgccaagc
     1981 cagagggatg agcaatcacg cctgagagcc cactgcgtgc catgcagtcc gcacagccgc
     2041 agcggttttc tagatggaga aactgaggct cagtgacttg cccgctgcac tctgtccacg
     2101 gccgctgcac acgccccctt gggctgcgct cccggacctt ctaatgtgac cacggctccc
     2161 ggcatgcagg ccctgccagc ggagggagcc cggtggtgac ccttggtctg cagccctctt
     2221 tggaggtgaa taaatgcggt ctggagccca
//
