LOCUS       NM_027394               1785 bp    mRNA    linear   ROD 14-JUN-2024
DEFINITION  Mus musculus ubiquitin protein ligase E3D (Ube3d), transcript
            variant 1, mRNA.
ACCESSION   NM_027394 XM_135023 XM_918198 XM_988068
VERSION     NM_027394.3
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 1785)
  AUTHORS   Tao,T., Xu,N., Li,J., Zhao,M., Li,X. and Huang,L.
  TITLE     Conditional loss of Ube3d in the retinal pigment epithelium
            accelerates age-associated alterations in the retina of mice
  JOURNAL   J Pathol 261 (4), 442-454 (2023)
   PUBMED   37772657
  REMARK    GeneRIF: Conditional loss of Ube3d in the retinal pigment
            epithelium accelerates age-associated alterations in the retina of
            mice.
REFERENCE   2  (bases 1 to 1785)
  AUTHORS   Heller-Trulli,D., Liu,H., Mukherjee,S. and Moore,C.L.
  TITLE     UBE3D Regulates mRNA 3'-End Processing and Maintains Adipogenic
            Potential in 3T3-L1 Cells
  JOURNAL   Mol Cell Biol 42 (12), e0017422 (2022)
   PUBMED   36519931
  REMARK    GeneRIF: UBE3D Regulates mRNA 3'-End Processing and Maintains
            Adipogenic Potential in 3T3-L1 Cells.
REFERENCE   3  (bases 1 to 1785)
  AUTHORS   Xu,N., Liu,Y., Nai,S., Tao,Y., Ding,Y., Jia,L., Geng,Q., Li,J.,
            Bai,Y., Wei,G.H., Dong,M.Q., Luo,L., Zhao,M., Xu,X., Li,X.X., Li,J.
            and Huang,L.
  TITLE     UBE3D Is Involved in Blue Light-Induced Retinal Damage by
            Regulating Double-Strand Break Repair
  JOURNAL   Invest Ophthalmol Vis Sci 63 (10), 7 (2022)
   PUBMED   36094642
  REMARK    GeneRIF: UBE3D Is Involved in Blue Light-Induced Retinal Damage by
            Regulating Double-Strand Break Repair.
REFERENCE   4  (bases 1 to 1785)
  AUTHORS   Liu,X., Jiao,Y., Cao,Y., Deng,N., Ma,Y., Hasty,K.A., Kang,A.,
            Chen,H., Stuart,J.M. and Gu,W.
  TITLE     Decreased expression levels of Ifi genes is associated to the
            increased resistance to spontaneous arthritis disease in mice
            deficiency of IL-1RA
  JOURNAL   BMC Immunol 17 (1), 25 (2016)
   PUBMED   27480124
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1785)
  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: Ablation of the UBE3D protein lead to an abnormal amount
            of pigment granules deposited in retinal pigment epithelium
            microvilli area and an abnormal response on electroretinography
            (ERG) in UBE3D(+/-) heterozygous mice.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1785)
  AUTHORS   Stryke,D., Kawamoto,M., Huang,C.C., Johns,S.J., King,L.A.,
            Harper,C.A., Meng,E.C., Lee,R.E., Yee,A., L'Italien,L.,
            Chuang,P.T., Young,S.G., Skarnes,W.C., Babbitt,P.C. and Ferrin,T.E.
  TITLE     BayGenomics: a resource of insertional mutations in mouse embryonic
            stem cells
  JOURNAL   Nucleic Acids Res 31 (1), 278-281 (2003)
   PUBMED   12520002
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC157998.2 and AC137556.3.
            
            On Mar 24, 2023 this sequence version replaced NM_027394.2.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK049229.1, SRR13948564.3487436.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMN00849374,
                                           SAMN00849375 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-210               AC157998.2         114746-114955
            211-407             AC157998.2         127686-127882
            408-498             AC157998.2         130843-130933
            499-667             AC157998.2         138942-139110
            668-737             AC157998.2         144343-144412
            738-807             AC157998.2         152259-152328
            808-916             AC137556.3         169009-169117       c
            917-1080            AC137556.3         166588-166751       c
            1081-1219           AC137556.3         116088-116226       c
            1220-1785           AC137556.3         51058-51623         c
FEATURES             Location/Qualifiers
     source          1..1785
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="9"
                     /map="9 46.58 cM"
     gene            1..1785
                     /gene="Ube3d"
                     /gene_synonym="2610018I03Rik; Ube2cbp"
                     /note="ubiquitin protein ligase E3D"
                     /db_xref="GeneID:70348"
                     /db_xref="MGI:MGI:1917598"
     exon            1..210
                     /gene="Ube3d"
                     /gene_synonym="2610018I03Rik; Ube2cbp"
                     /inference="alignment:Splign:2.1.0"
     CDS             134..1240
                     /gene="Ube3d"
                     /gene_synonym="2610018I03Rik; Ube2cbp"
                     /EC_number="2.3.2.26"
                     /note="isoform 1 is encoded by transcript variant 1;
                     UbcH10 binding protein with a hect-like domain;
                     ubcH10-binding protein with a HECT-like domain; E3
                     ubiquitin-protein ligase E3D; HECT-type E3 ubiquitin
                     transferase E3D; ubiquitin-conjugating enzyme E2C binding
                     protein"
                     /codon_start=1
                     /product="E3 ubiquitin-protein ligase E3D isoform 1"
                     /protein_id="NP_081670.1"
                     /db_xref="CCDS:CCDS40713.1"
                     /db_xref="GeneID:70348"
                     /db_xref="MGI:MGI:1917598"
                     /translation="MAVAAAETRVFLEVRRRLQSALLILGGPDEGGMHLDISITPTSL
                     LVRTPDGCTEIRLPAGVRLVPSSCGGLQYISGDGLHLRLRVQAESSPQPISVFNQSLQ
                     AQECCTFYCQSCGEVTIKDRKLLRVLPLPSENWSALVGEWCCHPDPFANRPLHPREND
                     CFIGDSFFLVNLKSDLEQEPKANTKVICKRCKVTLGETMSSETTKFYMTEVIIRPSEG
                     SFPNIPRSQFLQSIIAQCLVELSSARSTFRFTIQGQDGKVYILLWVLNSDSLVIEPLR
                     SSSCSRKFPLLESSLEAGSGSAWNAIKVLYQPCIKSRNKELASSWEGDISVHPLTLPS
                     ATCLELLLILSRNNASLPLSLRQMNSFQVAFLKM"
     exon            211..407
                     /gene="Ube3d"
                     /gene_synonym="2610018I03Rik; Ube2cbp"
                     /inference="alignment:Splign:2.1.0"
     exon            408..498
                     /gene="Ube3d"
                     /gene_synonym="2610018I03Rik; Ube2cbp"
                     /inference="alignment:Splign:2.1.0"
     exon            499..667
                     /gene="Ube3d"
                     /gene_synonym="2610018I03Rik; Ube2cbp"
                     /inference="alignment:Splign:2.1.0"
     exon            668..737
                     /gene="Ube3d"
                     /gene_synonym="2610018I03Rik; Ube2cbp"
                     /inference="alignment:Splign:2.1.0"
     exon            738..807
                     /gene="Ube3d"
                     /gene_synonym="2610018I03Rik; Ube2cbp"
                     /inference="alignment:Splign:2.1.0"
     exon            808..916
                     /gene="Ube3d"
                     /gene_synonym="2610018I03Rik; Ube2cbp"
                     /inference="alignment:Splign:2.1.0"
     exon            917..1080
                     /gene="Ube3d"
                     /gene_synonym="2610018I03Rik; Ube2cbp"
                     /inference="alignment:Splign:2.1.0"
     exon            1081..1219
                     /gene="Ube3d"
                     /gene_synonym="2610018I03Rik; Ube2cbp"
                     /inference="alignment:Splign:2.1.0"
     exon            1220..1785
                     /gene="Ube3d"
                     /gene_synonym="2610018I03Rik; Ube2cbp"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1760..1765
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Ube3d"
                     /gene_synonym="2610018I03Rik; Ube2cbp"
                     /note="hexamer: ATTAAA"
     polyA_site      1785
                     /gene="Ube3d"
                     /gene_synonym="2610018I03Rik; Ube2cbp"
                     /note="major polyA site"
ORIGIN      
        1 agacggccgc cgccggatcc cttcgcgcta ccttggcctg ggagccagcc gcctgctacg
       61 gccgcacgtg ctcccaccct gtccgggttc tagtaactgt gggctcggtc ccgcgtgggt
      121 ccctgagtcg gccatggcgg tggctgcggc ggaaacgcgc gtgttcctgg aagtgcggag
      181 acggctgcag agtgcgctgc taatcctggg tgggccagat gaaggaggga tgcacctgga
      241 catttccata acgcccacct ctcttttggt gagaacccct gacggctgca ccgagatccg
      301 acttccagca ggggtcagac ttgtaccttc ctcgtgtggc gggctgcagt atatcagtgg
      361 cgatggttta catctgcgct tgcgggtcca ggctgaatcc agcccacagc cgatttcagt
      421 gtttaatcaa agcttgcaag cccaagaatg ttgcaccttt tattgccagt cctgtggtga
      481 agtcacgata aaggacagga aactcctcag ggtgctcccc ctgcccagtg agaactggag
      541 cgctctggtc ggagagtggt gctgccatcc cgaccccttt gctaataggc ctcttcatcc
      601 gagagaaaat gactgtttta ttggggactc tttcttctta gtgaatttga aaagtgattt
      661 ggagcaggaa ccaaaagcaa ataccaaagt catttgtaag cgttgcaagg taacgttggg
      721 agagaccatg tcatcagaaa caaccaaatt ttacatgaca gaggtaatta tccggccatc
      781 tgagggaagt tttcctaaca taccaaggtc tcagttcctt cagagcatta ttgcccagtg
      841 cctggtggag ctctcctctg ctagaagtac tttcagattc acgattcaag gtcaggatgg
      901 caaagtgtac atcttgctct gggttttgaa ctcagacagt ttggtgatcg aacctctgag
      961 aagttccagt tgtagcagga agttcccgct gttggaaagt tccttggaag ctggctctgg
     1021 ctctgcctgg aatgccatca aagtcctcta ccagccctgt atcaaaagca ggaataaaga
     1081 gcttgctagc tcctgggaag gtgacatcag cgtccaccct ttaaccctgc cctctgcaac
     1141 ctgtttggag ctgctgctaa tactatccag gaacaatgcc tccctgcctc tgtcccttcg
     1201 ccaaatgaat tccttccagg tggccttttt gaagatgtaa ctgttgaagc tgcggctttc
     1261 tggtctacca gcggacagct ctccagctcg gaacccagcc caagccagca gtttgctctg
     1321 tgagcacaac ctgctggggt gaacaagaac taagctgcag aatggggact gtgctgaaat
     1381 ttccagtttt tcttgtttgc atttcttctc taagagttga ctttaggtcc ctgcaaactc
     1441 aaggctataa ggaaagttgt agtagcaggt taagtataga agttgcacct ctacttccca
     1501 cagagaggaa tattcaaatc tgtgctgtgt cagcaccacc tggaagcata ttagctaatg
     1561 gaagcccatc tgtcctgtgt gaacgcagcg aggaacttca ctggggagct gaatgttaac
     1621 cactctaaat cctgggaaat aaacttttaa agggctccgg gtttgtttaa aacacatctt
     1681 taaaaactaa aatgtacaag ttttcatatc ttattcaaag aagatgcttg ttggtgtttg
     1741 ttgaatgagt gagtatccaa ttaaagtttt cctgagggtg taaaa
//
