LOCUS       NM_001372510            4609 bp    mRNA    linear   ROD 02-MAY-2024
DEFINITION  Mus musculus upstream binding protein 1 (Ubp1), transcript variant
            5, mRNA.
ACCESSION   NM_001372510 XM_006512051
VERSION     NM_001372510.1
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 4609)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   2  (bases 1 to 4609)
  AUTHORS   Gurdziel,K., Vogt,K.R., Walton,K.D., Schneider,G.K. and
            Gumucio,D.L.
  TITLE     Transcriptome of the inner circular smooth muscle of the developing
            mouse intestine: Evidence for regulation of visceral smooth muscle
            genes by the hedgehog target gene, cJun
  JOURNAL   Dev Dyn 245 (5), 614-626 (2016)
   PUBMED   26930384
REFERENCE   3  (bases 1 to 4609)
  AUTHORS   Lin,J.C., Lu,Y.H., Liu,Y.R. and Lin,Y.J.
  TITLE     RBM4a-regulated splicing cascade modulates the differentiation and
            metabolic activities of brown adipocytes
  JOURNAL   Sci Rep 6, 20665 (2016)
   PUBMED   26857472
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 4609)
  AUTHORS   Koscielny,G., Yaikhom,G., Iyer,V., Meehan,T.F., Morgan,H.,
            Atienza-Herrero,J., Blake,A., Chen,C.K., Easty,R., Di Fenza,A.,
            Fiegel,T., Grifiths,M., Horne,A., Karp,N.A., Kurbatova,N.,
            Mason,J.C., Matthews,P., Oakley,D.J., Qazi,A., Regnart,J.,
            Retha,A., Santos,L.A., Sneddon,D.J., Warren,J., Westerberg,H.,
            Wilson,R.J., Melvin,D.G., Smedley,D., Brown,S.D., Flicek,P.,
            Skarnes,W.C., Mallon,A.M. and Parkinson,H.
  TITLE     The International Mouse Phenotyping Consortium Web Portal, a
            unified point of access for knockout mice and related phenotyping
            data
  JOURNAL   Nucleic Acids Res 42 (Database issue), D802-D809 (2014)
   PUBMED   24194600
REFERENCE   5  (bases 1 to 4609)
  AUTHORS   Guo,G., Huss,M., Tong,G.Q., Wang,C., Li Sun,L., Clarke,N.D. and
            Robson,P.
  TITLE     Resolution of cell fate decisions revealed by single-cell gene
            expression analysis from zygote to blastocyst
  JOURNAL   Dev Cell 18 (4), 675-685 (2010)
   PUBMED   20412781
REFERENCE   6  (bases 1 to 4609)
  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
REFERENCE   7  (bases 1 to 4609)
  AUTHORS   Piao,Y., Ko,N.T., Lim,M.K. and Ko,M.S.
  TITLE     Construction of long-transcript enriched cDNA libraries from
            submicrogram amounts of total RNAs by a universal PCR amplification
            method
  JOURNAL   Genome Res 11 (9), 1553-1558 (2001)
   PUBMED   11544199
REFERENCE   8  (bases 1 to 4609)
  AUTHORS   Ramamurthy,L., Barbour,V., Tuckfield,A., Clouston,D.R., Topham,D.,
            Cunningham,J.M. and Jane,S.M.
  TITLE     Targeted disruption of the CP2 gene, a member of the NTF family of
            transcription factors
  JOURNAL   J Biol Chem 276 (11), 7836-7842 (2001)
   PUBMED   10995745
REFERENCE   9  (bases 1 to 4609)
  AUTHORS   Sueyoshi,T., Kobayashi,R., Nishio,K., Aida,K., Moore,R., Wada,T.,
            Handa,H. and Negishi,M.
  TITLE     A nuclear factor (NF2d9) that binds to the male-specific P450 (Cyp
            2d-9) gene in mouse liver
  JOURNAL   Mol Cell Biol 15 (8), 4158-4166 (1995)
   PUBMED   7623810
REFERENCE   10 (bases 1 to 4609)
  AUTHORS   Sanno,Y., Holzer,M. and Schimke,R.T.
  TITLE     Studies of a mutation affecting pyrimidine degradation in inbred
            mice
  JOURNAL   J Biol Chem 245 (21), 5668-5676 (1970)
   PUBMED   5472365
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC107803.15 and CT025531.9.
            
            On Sep 3, 2019 this sequence version replaced XM_006512051.4.
            
            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.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AY182062.1, SRR1660819.117072.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            CDS uses downstream in-frame AUG :: upstream AUG and CDS extension
                                                is not conserved
            RefSeq Select criteria           :: based on manual assertion,
                                                conservation, expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-455               AC107803.15        189546-190000
            456-607             CT025531.9         165386-165537       c
            608-684             CT025531.9         158701-158777       c
            685-790             CT025531.9         154317-154422       c
            791-897             CT025531.9         153572-153678       c
            898-1050            CT025531.9         151635-151787       c
            1051-1161           CT025531.9         151446-151556       c
            1162-1269           CT025531.9         150902-151009       c
            1270-1373           CT025531.9         145730-145833       c
            1374-1428           CT025531.9         144096-144150       c
            1429-1522           CT025531.9         143800-143893       c
            1523-1613           CT025531.9         140969-141059       c
            1614-1732           CT025531.9         140125-140243       c
            1733-1875           CT025531.9         137492-137634       c
            1876-1927           CT025531.9         136815-136866       c
            1928-4609           CT025531.9         132358-135039       c
FEATURES             Location/Qualifiers
     source          1..4609
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="9"
                     /map="9 64.14 cM"
     gene            1..4609
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /note="upstream binding protein 1"
                     /db_xref="GeneID:22221"
                     /db_xref="MGI:MGI:104889"
     exon            1..455
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     CDS             343..1965
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /note="isoform a is encoded by transcript variant 5;
                     nuclear factor 2d9"
                     /codon_start=1
                     /product="upstream-binding protein 1 isoform a"
                     /protein_id="NP_001359439.1"
                     /db_xref="GeneID:22221"
                     /db_xref="MGI:MGI:104889"
                     /translation="MAWVLSMDEVIESGLVHDFDSSLSGIGQELGAGAYSMSDVLALP
                     IFKQEDSSLSLEDEAKHPPFQYVMCAATSPAVKLHDETLTYLNQGQSYEIRMLDNRKM
                     GDMPELSGKLVKSIIRVVFHDRRLQYTEHQQLEGWKWNRPGDRLLDLDIPMSVGIIDT
                     RTNPSQLNAVEFLWDPAKRTSAFIQVHCISTEFTPRKHGGEKGVPFRIQVDTFKQNEN
                     GEYTDHLHSASCQIKVFKPKGADRKQKNDREKMEKRTAHEKEKYQPSYDTTILTEMRL
                     EPIIEDAVEHEQKKSSKRTLPADYGDSLAKRGSCSPWPDTPTAYVNNSPSPAPTFTSS
                     QPSTCSVPDSNSSSPNHQGDGAAQASGEQIQPSATTQETQQWLLKNRFSSYTRLFSNF
                     SGADLLKLTKEDLVQICGAADGIRLYNSLKSRSVRPRLTIYVCQEQPSSTALQGQPQA
                     AGSGGESGGGTPSVYHAIYLEEMVASEVARKLASVFNIPFHQINQVYRQGPTGIHILV
                     SDQMVQNFQDETCFLFSTVKAENNDGIHIILK"
     exon            456..607
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            608..684
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            685..790
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            791..897
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            898..1050
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            1051..1161
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            1162..1269
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            1270..1373
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            1374..1428
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            1429..1522
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            1523..1613
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            1614..1732
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            1733..1875
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            1876..1927
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            1928..4609
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3561..3566
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /note="hexamer: AATAAA"
     polyA_site      3583
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
     regulatory      3757..3762
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /note="hexamer: AATAAA"
     polyA_site      3784
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /note="major polyA site"
     regulatory      4588..4593
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /note="hexamer: AATAAA"
     polyA_site      4609
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
ORIGIN      
        1 cggggggatg cgcgctgggg ctgtggggcg gggcgggcgg cggccgcggg agcggcgccg
       61 ggggcgggcg gcggcatgag gcgcggggcc ggcggccgcg ggagggcggc gcggctcgcg
      121 gcccggtcgc tcccgccgca gctgctggcc cgcacgctgt gccctgacag ctgggcctcg
      181 gccgctctcg tctcagccgc gtcccgcgcc gccgcaggtg accactcgcc gcgccgccgg
      241 aggcttcacc cgcgtcctcc ctcaggacgc gcccgcggag ctcgggcgcc ttcgccccgg
      301 acccggaggc cgcgctgcgc ggggcggcgg cgaggccgga agatggcctg ggtgctcagt
      361 atggacgagg tgatcgagtc cgggctggtg cacgacttcg actccagcct gtccggcatc
      421 gggcaggagc tgggcgccgg cgcctacagc atgagtgatg tgttggcatt gcccattttc
      481 aagcaagaag attccagtct ttccttggaa gatgaggcca agcacccccc cttccaatat
      541 gtaatgtgtg ctgcaacttc gccagccgtt aagctgcacg acgagacact tacttacttg
      601 aaccaaggcc agtcttatga aattcggatg ctggataatc gcaaaatggg agacatgcct
      661 gagctcagtg ggaagttggt aaagagcatc ataagggtgg tgttccatga caggcggcta
      721 cagtacacag aacatcagca gcttgaaggc tggaagtgga atcgtccagg agacaggctt
      781 ctcgatttag atattccaat gtctgtggga ataattgaca caaggacaaa tccaagccag
      841 ttaaatgcag ttgaatttct gtgggaccct gcaaagcgca catctgcctt cattcaggta
      901 cattgtatca gcacagaatt caccccgcgt aagcatggag gtgaaaaagg agtgcctttc
      961 aggatccagg ttgacacctt taagcagaat gaaaacgggg aatacacaga tcatcttcac
     1021 tcagccagct gccaaatcaa agtctttaag cctaaaggtg cagacagaaa acaaaaaaat
     1081 gaccgagaaa agatggagaa gagaacagct catgaaaaag aaaagtacca gccatcttac
     1141 gacaccacca ttctcacaga gatgaggctt gagcctataa ttgaagatgc agttgaacat
     1201 gagcagaaaa agtccagcaa gcggactttg ccagcagact acggtgattc tctggcaaag
     1261 cgaggcagtt gttctccatg gcccgacacc cctacagcct atgtgaacaa cagcccttcc
     1321 ccagcgccca ctttcacctc ctcacaaccg agcacgtgca gtgtcccaga cagcaattct
     1381 tcatccccaa atcaccaggg agatggagct gcacaagcgt ctggggaaca aattcagcct
     1441 tcagctacaa cccaggaaac acagcagtgg ctgctcaaaa acaggttctc ttcctacaca
     1501 agactgttct ctaatttttc aggtgccgac ttattaaagc tgacaaagga ggatttagtt
     1561 cagatttgtg gtgcagccga tggaattcgg ctctataatt ccctgaagtc aaggtcggtt
     1621 aggccccgct taaccatcta tgtctgccag gagcagccga gtagcaccgc gctgcaaggg
     1681 cagccacaag ctgcaggcag tggaggtgaa agtggcggtg ggacgccctc cgtttatcat
     1741 gcaatctact tggaagaaat ggttgcctca gaagttgctc gaaaacttgc ctccgtgttt
     1801 aatattcctt tccaccaaat taaccaggtt tacagacagg gccccactgg tatccacatt
     1861 cttgttagtg accagatggt tcagaacttt caagatgaaa cttgtttttt attctccaca
     1921 gtaaaagctg aaaataatga tggtattcac ataattttga agtgatacct taaacggact
     1981 gaactctatc cagtaccaaa taaagtcatg cttaaaagtg tgtgaagact gaatccaaga
     2041 agtcttggga ttggatttta ctgtgaaatg tttcatattg aaaacacaag atgaccttcc
     2101 taaggagctg caggagaggc aaatctcctc agtgtcactg ccacagcccc agcatcctcg
     2161 tgagagagag agagagagag agagagcctg tgcgagcgag cgagcatgtc aggtgacatt
     2221 cgacccagct tctaccgtgg tgggcacaag tacttgcttc cctggcaagg gccagtggac
     2281 agaacccccc agagcagttg ctgctgcttt tcacactgta tgcagtttga attgaatgta
     2341 aaactcaacc gtgggcattt acctttctgt gccagtttgg cttttgttgc ctgaacctta
     2401 tgctggcctg gggaggagat agagttgcct ctgggggagc tgctctgtac tgggtgacac
     2461 ggccgtatgg gtcaggtaag aggcttagct ccttcctgaa ggtggacatc agaggggtcc
     2521 tgctagaccc gagccgagcc gagccgagcc gagcagatga gcagactgca ctccctgtca
     2581 gccattccgt gtgcgaggtc agtgtaagtc ctaataggta ccgaggcttg ggcgtttggc
     2641 ttgggcttcc agttttagca ttttagtttc tggatttcac ctttgaaacc tccttgcctt
     2701 ttaaactcat gtggtttcct tttctcgtct ccccaccccc tacttgagcc tccaggtgtg
     2761 tatactccct tgtcttgtgc ctactctgtt cttaaacatg tctaaagccc ttcccagacc
     2821 tcagaactag atgatgggga aacagtatca tgtctctgat attaaaggga tttttttttt
     2881 aatgagacaa aattaccctg gaaacactag atgtcataac aagacactaa aatgtatcat
     2941 aaaccttccc cccgcccaaa taccgagttt cagtacaatc atggctagat ggtggctggt
     3001 gggggctctg tactctgcat cgttcatgct ttgtctgtag caggtgtgcc tgtgagtcac
     3061 gcgtgcacac ggccatcacc tctcctctct ctcacgacct ctcgtgaggc ctgtggcata
     3121 tccgagtttt taaaaacttc tttccatttt aattctgtag catctttgcc catttgctta
     3181 gctgctggct gtgaatgcgc ttgtctgacc cttgttgttc aggtgggtag gaataattac
     3241 attttaaatg aaatctcttc cagaagacag actacttcaa tgggtaaagg ctttaacagc
     3301 ttgttttatt catactgggg attaattact tgccacaaaa caaactgtct cgataatttt
     3361 cctcttgggt ttggcagtgc tgtagccttg caggcccttt aggagggagc gctcccatcc
     3421 gtccttccct ttgctttgtg tgaccacatg ctttctgtac cattcactta cttgggaaag
     3481 aagtggactt atctcctaat tgttttagaa ttttgcttgt ctatttagct ttcctttttg
     3541 gatctcatga tttatggaac aataaatgtc atttaatgct gtgtattatt ttgaattcat
     3601 tatcaggttt tagaagtggg gtgaaagtac ttacaggctc ctcagacttg aacttgtgct
     3661 gagcagcaca aagtgctagg ccgtctcagt gaaactatac ctggcccatg gcaccagcag
     3721 tctgctactt tggttatagg atgtacagtt cagtgtaata aatgttttct gattgttttg
     3781 taaacgtgtc actcatttca aatctaagct gcactgttgt catctgaagt cacatggact
     3841 caagggttgg cctcgatgtg catggtgtaa gatgttcatc ccaatttcca cagaggtgat
     3901 gcaactcaag acaagtagtt acagtaagtg cctgctgcat acttagaaga gacagatcag
     3961 gctcgaagtc atggtcactg agcatcaagt ccaccatctg caatgagcca catcattcta
     4021 gctcagaaaa aattccatag ttgtctcggg tatttcatag aagtgagtct cacgagtcac
     4081 tggagcaggt ctagtgctta cttagcagct cctccagcag ccatgcccca ccccccaccc
     4141 cccacacagc gccacagtta agtagctgtt gtggtagtcg tacccttcgt atcacagtac
     4201 tccttacaag gagccgttcg cctgatgagt ctctggaatg tgtgtgtatc tgctttccct
     4261 cccagagtgc atcggagaca ctgcatctat gcagatgctt cagtgctgtc caccgaggca
     4321 gaaaaagctc tttcttgcag ttgtggttgg ggtggttgct ggaaggttca gctaccatta
     4381 ttaatattga aggtgggagg tctcagtggc acagagcagc agcaccgtaa tagtaaaaga
     4441 cagcatcctg ggacagggac aggagtgcct gcatttgcaa aaatctgact ccagtgagca
     4501 aggtgaggtg ttgtgagtct gaagctgcaa atacgtcatt catttgacaa gctttaaaac
     4561 agttatgatt tctaaaaatt cagagtaaat aaaaaccaca tccattcta
//
