LOCUS       NM_198920               1925 bp    mRNA    linear   PRI 18-NOV-2024
DEFINITION  Homo sapiens ubiquitin protein ligase E3D (UBE3D), transcript
            variant 1, mRNA.
ACCESSION   NM_198920 XM_028218
VERSION     NM_198920.3
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 1925)
  AUTHORS   Lin,M.H., Jensen,M.K., Elrod,N.D., Chu,H.F., Haseley,M., Beam,A.C.,
            Huang,K.L., Chiang,W., Russell,W.K., Williams,K., Proschel,C.,
            Wagner,E.J. and Tong,L.
  TITLE     Cytoplasmic binding partners of the Integrator endonuclease INTS11
            and its paralog CPSF73 are required for their nuclear function
  JOURNAL   Mol Cell 84 (15), 2900-2917 (2024)
   PUBMED   39032490
REFERENCE   2  (bases 1 to 1925)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   3  (bases 1 to 1925)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   4  (bases 1 to 1925)
  AUTHORS   Offenbacher,S., Divaris,K., Barros,S.P., Moss,K.L., Marchesan,J.T.,
            Morelli,T., Zhang,S., Kim,S., Sun,L., Beck,J.D., Laudes,M.,
            Munz,M., Schaefer,A.S. and North,K.E.
  TITLE     Genome-wide association study of biologically informed periodontal
            complex traits offers novel insights into the genetic basis of
            periodontal disease
  JOURNAL   Hum Mol Genet 25 (10), 2113-2129 (2016)
   PUBMED   26962152
  REMARK    GeneRIF: With the exception of associations of BEGAIN with severe
            and UBE3D with moderate chronic periodontitis (CP) , no other loci
            were associated with CP in ARIC or aggressive periodontitis in the
            German sample.
REFERENCE   5  (bases 1 to 1925)
  AUTHORS   Boldt,K., van Reeuwijk,J., Lu,Q., Koutroumpas,K., Nguyen,T.M.,
            Texier,Y., van Beersum,S.E., Horn,N., Willer,J.R., Mans,D.A.,
            Dougherty,G., Lamers,I.J., Coene,K.L., Arts,H.H., Betts,M.J.,
            Beyer,T., Bolat,E., Gloeckner,C.J., Haidari,K., Hetterschijt,L.,
            Iaconis,D., Jenkins,D., Klose,F., Knapp,B., Latour,B.,
            Letteboer,S.J., Marcelis,C.L., Mitic,D., Morleo,M., Oud,M.M.,
            Riemersma,M., Rix,S., Terhal,P.A., Toedt,G., van Dam,T.J., de
            Vrieze,E., Wissinger,Y., Wu,K.M., Apic,G., Beales,P.L.,
            Blacque,O.E., Gibson,T.J., Huynen,M.A., Katsanis,N., Kremer,H.,
            Omran,H., van Wijk,E., Wolfrum,U., Kepes,F., Davis,E.E., Franco,B.,
            Giles,R.H., Ueffing,M., Russell,R.B. and Roepman,R.
  CONSRTM   UK10K Rare Diseases Group
  TITLE     An organelle-specific protein landscape identifies novel diseases
            and molecular mechanisms
  JOURNAL   Nat Commun 7, 11491 (2016)
   PUBMED   27173435
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1925)
  AUTHORS   Huang,L.Z., Li,Y.J., Xie,X.F., Zhang,J.J., Cheng,C.Y.,
            Yamashiro,K., Chen,L.J., Ma,X.Y., Cheung,C.M., Wang,Y.S.,
            Zhang,C.F., Bai,Y.J., Hou,J., Chen,X.L., Qi,Y., Li,S.S., Sun,Y.Y.,
            Mei,J.P., Cheng,Y., Yu,W.Z., Hu,X.B., Zhuang,F.F., Fan,L., Lu,Y.,
            Sun,X.H., Zhu,X.J., Shen,D.F., Chan,C.C., Zhao,M.W., Yoshimura,N.,
            Pang,C.P., Wong,T.Y., Khor,C.C., Zhang,K., Zhou,P. and Li,X.X.
  TITLE     Whole-exome sequencing implicates UBE3D in age-related macular
            degeneration in East Asian populations
  JOURNAL   Nat Commun 6, 6687 (2015)
   PUBMED   25872646
  REMARK    GeneRIF: A novel missense SNV, rs7739323, is strongly associated
            with age-related macular degeneration in an East Asian population.
            Publication Status: Online-Only
REFERENCE   7  (bases 1 to 1925)
  AUTHORS   Kobirumaki,F., Miyauchi,Y., Fukami,K. and Tanaka,H.
  TITLE     A novel UbcH10-binding protein facilitates the ubiquitinylation of
            cyclin B in vitro
  JOURNAL   J Biochem 137 (2), 133-139 (2005)
   PUBMED   15749827
  REMARK    GeneRIF: The carboxyl terminal half of H10BH was able to bind
            cyclin B and ubiquitinylate cyclin B in vitro.
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AK298205.1, AB126062.1, BC071763.1, BC057845.1 and AL034377.1.
            
            On Nov 22, 2018 this sequence version replaced NM_198920.2.
            
            Transcript Variant: This variant (1) encodes the longest isoform
            (1).
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK298205.1, SRR1660807.147058.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000369747.8/ ENSP00000358762.3
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-15                AK298205.1         1-15
            16-1617             AB126062.1         1-1602
            1618-1840           BC071763.1         740-962
            1841-1917           BC057845.1         1803-1879
            1918-1925           AL034377.1         18894-18901
FEATURES             Location/Qualifiers
     source          1..1925
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="6"
                     /map="6q14.1"
     gene            1..1925
                     /gene="UBE3D"
                     /gene_synonym="C6orf157; H10BH; UBE2CBP; YJR141W"
                     /note="ubiquitin protein ligase E3D"
                     /db_xref="GeneID:90025"
                     /db_xref="HGNC:HGNC:21381"
                     /db_xref="MIM:612495"
     exon            1..200
                     /gene="UBE3D"
                     /gene_synonym="C6orf157; H10BH; UBE2CBP; YJR141W"
                     /inference="alignment:Splign:2.1.0"
     CDS             124..1293
                     /gene="UBE3D"
                     /gene_synonym="C6orf157; H10BH; UBE2CBP; YJR141W"
                     /EC_number="2.3.2.26"
                     /note="isoform 1 is encoded by transcript variant 1;
                     UBCH10 binding protein with a hect-like domain;
                     ubiquitin-conjugating enzyme E2C-binding protein; E3
                     ubiquitin-protein ligase E3D; ubcH10-binding protein with
                     a HECT-like domain; HECT-type E3 ubiquitin transferase
                     E3D"
                     /codon_start=1
                     /product="E3 ubiquitin-protein ligase E3D isoform 1"
                     /protein_id="NP_944602.1"
                     /db_xref="CCDS:CCDS34491.1"
                     /db_xref="GeneID:90025"
                     /db_xref="HGNC:HGNC:21381"
                     /db_xref="MIM:612495"
                     /translation="MAASAAETRVFLEVRGQLQSALLILGEPKEGGMPMNISIMPSSL
                     QMKTPEGCTEIQLPAEVRLVPSSCRGLQFVVGDGLHLRLQTQAKLGTKLISMFNQSSQ
                     TQECCTFYCQSCGEVIIKDRKLLRVLPLPSENWGALVGEWCCHPDPFANKSLHPQEND
                     CFIGDSFFLVNLRTSLWQQRPELSPVEMCCVSSDNHCKLEPKANTKVICKRCKVMLGE
                     TVSSETTKFYMTEIIIQSSERSFPIIPRSWFVQSVIAQCLVQLSSARSTFRFTIQGQD
                     DKVYILLWLLNSDSLVIESLRNSKYIKKFPLLENTFKADSSSAWSAVKVLYQPCIKSR
                     NEKLVSLWESDISVHPLTLPSATCLELLLILSKSNANLPSSLRRVNSFQVAFLKM"
     exon            201..397
                     /gene="UBE3D"
                     /gene_synonym="C6orf157; H10BH; UBE2CBP; YJR141W"
                     /inference="alignment:Splign:2.1.0"
     exon            398..488
                     /gene="UBE3D"
                     /gene_synonym="C6orf157; H10BH; UBE2CBP; YJR141W"
                     /inference="alignment:Splign:2.1.0"
     exon            489..720
                     /gene="UBE3D"
                     /gene_synonym="C6orf157; H10BH; UBE2CBP; YJR141W"
                     /inference="alignment:Splign:2.1.0"
     exon            721..790
                     /gene="UBE3D"
                     /gene_synonym="C6orf157; H10BH; UBE2CBP; YJR141W"
                     /inference="alignment:Splign:2.1.0"
     exon            791..860
                     /gene="UBE3D"
                     /gene_synonym="C6orf157; H10BH; UBE2CBP; YJR141W"
                     /inference="alignment:Splign:2.1.0"
     exon            861..969
                     /gene="UBE3D"
                     /gene_synonym="C6orf157; H10BH; UBE2CBP; YJR141W"
                     /inference="alignment:Splign:2.1.0"
     exon            970..1133
                     /gene="UBE3D"
                     /gene_synonym="C6orf157; H10BH; UBE2CBP; YJR141W"
                     /inference="alignment:Splign:2.1.0"
     exon            1134..1272
                     /gene="UBE3D"
                     /gene_synonym="C6orf157; H10BH; UBE2CBP; YJR141W"
                     /inference="alignment:Splign:2.1.0"
     exon            1273..1925
                     /gene="UBE3D"
                     /gene_synonym="C6orf157; H10BH; UBE2CBP; YJR141W"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1823..1828
                     /regulatory_class="polyA_signal_sequence"
                     /gene="UBE3D"
                     /gene_synonym="C6orf157; H10BH; UBE2CBP; YJR141W"
                     /note="hexamer: ATTAAA"
     polyA_site      1848
                     /gene="UBE3D"
                     /gene_synonym="C6orf157; H10BH; UBE2CBP; YJR141W"
                     /note="major polyA site"
     regulatory      1897..1902
                     /regulatory_class="polyA_signal_sequence"
                     /gene="UBE3D"
                     /gene_synonym="C6orf157; H10BH; UBE2CBP; YJR141W"
                     /note="hexamer: AATAAA"
     polyA_site      1925
                     /gene="UBE3D"
                     /gene_synonym="C6orf157; H10BH; UBE2CBP; YJR141W"
ORIGIN      
        1 acaggcgcct gcgccgcagc ggggctgccg ctggttggtc cgcacgtgga acctctcctg
       61 gtcctgttga cccgggcccc tcggaacctc cagcttggtc cggtctggga ctggaagcct
      121 gccatggcgg cttctgcggc ggagacgcgc gtgtttctgg aggtgcgggg acagctgcag
      181 agcgcgcttc tgatcctggg agaaccgaaa gaaggaggta tgcccatgaa tatttccata
      241 atgccatctt cactccagat gaaaacccct gaaggctgca cagaaatcca gcttccagca
      301 gaggtcaggc ttgtaccttc ctcttgccgt gggctacagt ttgttgttgg agatggactg
      361 cacctgcgac tgcagacgca agcaaaatta ggcacaaaac tgatttcaat gtttaatcaa
      421 agctcgcaaa cccaagaatg ttgcacgttt tattgccaat cctgcggtga agtcataata
      481 aaagacagga agctcctcag ggtgctccca ctgccgagtg agaactgggg agctctagtt
      541 ggagaatggt gttgtcatcc tgaccccttt gctaataaat cacttcatcc gcaagagaat
      601 gactgtttta ttggagactc tttcttcttg gtgaatttaa gaaccagttt gtggcagcaa
      661 agacctgaac tatccccagt ggagatgtgc tgtgtttctt ctgacaacca ttgtaaattg
      721 gaaccaaagg caaataccaa agtaatttgt aagcgttgca aggtaatgtt gggagagacc
      781 gtgtcatcag aaaccaccaa gttttatatg acagagataa ttattcagtc atctgagagg
      841 agttttccta tcataccaag gtcttggttt gtccagagcg tgatcgccca gtgtctggtg
      901 cagctctcct ctgctagaag cacttttaga ttcacgattc aaggtcagga tgacaaagtg
      961 tatatcttgc tatggctttt aaattcagac agtttggtga ttgaatcttt gagaaattcc
     1021 aaatatatca aaaaattccc cttgttggaa aacacattca aagccgattc tagttctgcc
     1081 tggagtgctg tcaaggtcct ctaccagcca tgcatcaaaa gcaggaatga aaaacttgtc
     1141 agcttgtggg aaagtgacat cagcgtccac ccgctaaccc tgccctctgc aacctgcttg
     1201 gagctgctgt tgatattgtc aaagagtaat gccaatctgc cttcatccct tcgccgtgtg
     1261 aattcctttc aggtggcctt tttgaagatg taactattag agctgggcat tctcctcccc
     1321 cggcagacag ctctcaagca ggagcacacc gaggccagca gtcagctcag gaggcatcaa
     1381 ttacaaagac aagaaccaga gctatgggat aagagcattg cattgaagtt ttaagtttac
     1441 ttgtttgcat gtattctcta agagaagagt taactttaga tctttgaaaa cccaggactg
     1501 tgaagaaagt catagtagca ggttgaggca agtgtagaag ttacatctct atttcccaca
     1561 gagaggaata ttcacatatg tgcagtgtca gcaccacctg gaaggttatt acctaatgga
     1621 gatccatctg tcctgtgtgg aatccagtga ggaattttat tggtggaact gaatgttaac
     1681 tgctgtaaat cctaggaaat aaacttttaa agagtttctc aggatgattt aaaacaaatt
     1741 ttaaaaaaga aaagtagaaa acattttata ctttattcag aggagatgct caatagatgt
     1801 ttgttgaatg aatgattatc aaattaaagg atttcctatt tatgcaaatc tgcatgtttc
     1861 ttttgttatt tcctttacca tacattattg caaattaata aatatacctc actagcatcc
     1921 cgtta
//
