LOCUS       NM_001372514            4377 bp    mRNA    linear   ROD 02-MAY-2024
DEFINITION  Mus musculus upstream binding protein 1 (Ubp1), transcript variant
            6, mRNA.
ACCESSION   NM_001372514
VERSION     NM_001372514.1
KEYWORDS    RefSeq.
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 4377)
  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 4377)
  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 4377)
  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 4377)
  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 4377)
  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 4377)
  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 4377)
  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 4377)
  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 4377)
  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 4377)
  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.
            
            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 :: SRR7345562.1880177.1,
                                           SRR11927931.246367.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849380
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-72                AC107803.15        189382-189453
            73-331              AC107803.15        189742-190000
            332-483             CT025531.9         165386-165537       c
            484-560             CT025531.9         158701-158777       c
            561-666             CT025531.9         154317-154422       c
            667-773             CT025531.9         153572-153678       c
            774-926             CT025531.9         151635-151787       c
            927-1037            CT025531.9         151446-151556       c
            1038-1141           CT025531.9         145730-145833       c
            1142-1196           CT025531.9         144096-144150       c
            1197-1290           CT025531.9         143800-143893       c
            1291-1381           CT025531.9         140969-141059       c
            1382-1500           CT025531.9         140125-140243       c
            1501-1643           CT025531.9         137492-137634       c
            1644-1695           CT025531.9         136815-136866       c
            1696-4377           CT025531.9         132358-135039       c
FEATURES             Location/Qualifiers
     source          1..4377
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="9"
                     /map="9 64.14 cM"
     gene            1..4377
                     /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..72
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            73..331
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     CDS             219..1733
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /note="isoform b is encoded by transcript variant 6;
                     nuclear factor 2d9"
                     /codon_start=1
                     /product="upstream-binding protein 1 isoform b"
                     /protein_id="NP_001359443.1"
                     /db_xref="GeneID:22221"
                     /db_xref="MGI:MGI:104889"
                     /translation="MAWVLSMDEVIESGLVHDFDSSLSGIGQELGAGAYSMSDVLALP
                     IFKQEDSSLSLEDEAKHPPFQYVMCAATSPAVKLHDETLTYLNQGQSYEIRMLDNRKM
                     GDMPELSGKLVKSIIRVVFHDRRLQYTEHQQLEGWKWNRPGDRLLDLDIPMSVGIIDT
                     RTNPSQLNAVEFLWDPAKRTSAFIQVHCISTEFTPRKHGGEKGVPFRIQVDTFKQNEN
                     GEYTDHLHSASCQIKVFKPKGADRKQKNDREKMEKRTAHEKEKYQPSYDTTILTECSP
                     WPDTPTAYVNNSPSPAPTFTSSQPSTCSVPDSNSSSPNHQGDGAAQASGEQIQPSATT
                     QETQQWLLKNRFSSYTRLFSNFSGADLLKLTKEDLVQICGAADGIRLYNSLKSRSVRP
                     RLTIYVCQEQPSSTALQGQPQAAGSGGESGGGTPSVYHAIYLEEMVASEVARKLASVF
                     NIPFHQINQVYRQGPTGIHILVSDQMVQNFQDETCFLFSTVKAENNDGIHIILK"
     exon            332..483
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            484..560
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            561..666
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            667..773
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            774..926
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            927..1037
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            1038..1141
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            1142..1196
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            1197..1290
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            1291..1381
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            1382..1500
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            1501..1643
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            1644..1695
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     exon            1696..4377
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3329..3334
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /note="hexamer: AATAAA"
     polyA_site      3351
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
     regulatory      3525..3530
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /note="hexamer: AATAAA"
     polyA_site      3552
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /note="major polyA site"
     regulatory      4356..4361
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
                     /note="hexamer: AATAAA"
     polyA_site      4377
                     /gene="Ubp1"
                     /gene_synonym="Cp2b; LBP-1a; LBP-1b; NF2d9"
ORIGIN      
        1 ggaagcggcg agcgagccca agccggagcc gcatcgaagc tgcgtccggg ccggcggagc
       61 ggcggcggcg ggccgcgtcc cgcgccgccg caggtgacca ctcgccgcgc cgccggaggc
      121 ttcacccgcg tcctccctca ggacgcgccc gcggagctcg ggcgccttcg ccccggaccc
      181 ggaggccgcg ctgcgcgggg cggcggcgag gccggaagat ggcctgggtg ctcagtatgg
      241 acgaggtgat cgagtccggg ctggtgcacg acttcgactc cagcctgtcc ggcatcgggc
      301 aggagctggg cgccggcgcc tacagcatga gtgatgtgtt ggcattgccc attttcaagc
      361 aagaagattc cagtctttcc ttggaagatg aggccaagca cccccccttc caatatgtaa
      421 tgtgtgctgc aacttcgcca gccgttaagc tgcacgacga gacacttact tacttgaacc
      481 aaggccagtc ttatgaaatt cggatgctgg ataatcgcaa aatgggagac atgcctgagc
      541 tcagtgggaa gttggtaaag agcatcataa gggtggtgtt ccatgacagg cggctacagt
      601 acacagaaca tcagcagctt gaaggctgga agtggaatcg tccaggagac aggcttctcg
      661 atttagatat tccaatgtct gtgggaataa ttgacacaag gacaaatcca agccagttaa
      721 atgcagttga atttctgtgg gaccctgcaa agcgcacatc tgccttcatt caggtacatt
      781 gtatcagcac agaattcacc ccgcgtaagc atggaggtga aaaaggagtg cctttcagga
      841 tccaggttga cacctttaag cagaatgaaa acggggaata cacagatcat cttcactcag
      901 ccagctgcca aatcaaagtc tttaagccta aaggtgcaga cagaaaacaa aaaaatgacc
      961 gagaaaagat ggagaagaga acagctcatg aaaaagaaaa gtaccagcca tcttacgaca
     1021 ccaccattct cacagagtgt tctccatggc ccgacacccc tacagcctat gtgaacaaca
     1081 gcccttcccc agcgcccact ttcacctcct cacaaccgag cacgtgcagt gtcccagaca
     1141 gcaattcttc atccccaaat caccagggag atggagctgc acaagcgtct ggggaacaaa
     1201 ttcagccttc agctacaacc caggaaacac agcagtggct gctcaaaaac aggttctctt
     1261 cctacacaag actgttctct aatttttcag gtgccgactt attaaagctg acaaaggagg
     1321 atttagttca gatttgtggt gcagccgatg gaattcggct ctataattcc ctgaagtcaa
     1381 ggtcggttag gccccgctta accatctatg tctgccagga gcagccgagt agcaccgcgc
     1441 tgcaagggca gccacaagct gcaggcagtg gaggtgaaag tggcggtggg acgccctccg
     1501 tttatcatgc aatctacttg gaagaaatgg ttgcctcaga agttgctcga aaacttgcct
     1561 ccgtgtttaa tattcctttc caccaaatta accaggttta cagacagggc cccactggta
     1621 tccacattct tgttagtgac cagatggttc agaactttca agatgaaact tgttttttat
     1681 tctccacagt aaaagctgaa aataatgatg gtattcacat aattttgaag tgatacctta
     1741 aacggactga actctatcca gtaccaaata aagtcatgct taaaagtgtg tgaagactga
     1801 atccaagaag tcttgggatt ggattttact gtgaaatgtt tcatattgaa aacacaagat
     1861 gaccttccta aggagctgca ggagaggcaa atctcctcag tgtcactgcc acagccccag
     1921 catcctcgtg agagagagag agagagagag agagcctgtg cgagcgagcg agcatgtcag
     1981 gtgacattcg acccagcttc taccgtggtg ggcacaagta cttgcttccc tggcaagggc
     2041 cagtggacag aaccccccag agcagttgct gctgcttttc acactgtatg cagtttgaat
     2101 tgaatgtaaa actcaaccgt gggcatttac ctttctgtgc cagtttggct tttgttgcct
     2161 gaaccttatg ctggcctggg gaggagatag agttgcctct gggggagctg ctctgtactg
     2221 ggtgacacgg ccgtatgggt caggtaagag gcttagctcc ttcctgaagg tggacatcag
     2281 aggggtcctg ctagacccga gccgagccga gccgagccga gcagatgagc agactgcact
     2341 ccctgtcagc cattccgtgt gcgaggtcag tgtaagtcct aataggtacc gaggcttggg
     2401 cgtttggctt gggcttccag ttttagcatt ttagtttctg gatttcacct ttgaaacctc
     2461 cttgcctttt aaactcatgt ggtttccttt tctcgtctcc ccacccccta cttgagcctc
     2521 caggtgtgta tactcccttg tcttgtgcct actctgttct taaacatgtc taaagccctt
     2581 cccagacctc agaactagat gatggggaaa cagtatcatg tctctgatat taaagggatt
     2641 ttttttttaa tgagacaaaa ttaccctgga aacactagat gtcataacaa gacactaaaa
     2701 tgtatcataa accttccccc cgcccaaata ccgagtttca gtacaatcat ggctagatgg
     2761 tggctggtgg gggctctgta ctctgcatcg ttcatgcttt gtctgtagca ggtgtgcctg
     2821 tgagtcacgc gtgcacacgg ccatcacctc tcctctctct cacgacctct cgtgaggcct
     2881 gtggcatatc cgagttttta aaaacttctt tccattttaa ttctgtagca tctttgccca
     2941 tttgcttagc tgctggctgt gaatgcgctt gtctgaccct tgttgttcag gtgggtagga
     3001 ataattacat tttaaatgaa atctcttcca gaagacagac tacttcaatg ggtaaaggct
     3061 ttaacagctt gttttattca tactggggat taattacttg ccacaaaaca aactgtctcg
     3121 ataattttcc tcttgggttt ggcagtgctg tagccttgca ggccctttag gagggagcgc
     3181 tcccatccgt ccttcccttt gctttgtgtg accacatgct ttctgtacca ttcacttact
     3241 tgggaaagaa gtggacttat ctcctaattg ttttagaatt ttgcttgtct atttagcttt
     3301 cctttttgga tctcatgatt tatggaacaa taaatgtcat ttaatgctgt gtattatttt
     3361 gaattcatta tcaggtttta gaagtggggt gaaagtactt acaggctcct cagacttgaa
     3421 cttgtgctga gcagcacaaa gtgctaggcc gtctcagtga aactatacct ggcccatggc
     3481 accagcagtc tgctactttg gttataggat gtacagttca gtgtaataaa tgttttctga
     3541 ttgttttgta aacgtgtcac tcatttcaaa tctaagctgc actgttgtca tctgaagtca
     3601 catggactca agggttggcc tcgatgtgca tggtgtaaga tgttcatccc aatttccaca
     3661 gaggtgatgc aactcaagac aagtagttac agtaagtgcc tgctgcatac ttagaagaga
     3721 cagatcaggc tcgaagtcat ggtcactgag catcaagtcc accatctgca atgagccaca
     3781 tcattctagc tcagaaaaaa ttccatagtt gtctcgggta tttcatagaa gtgagtctca
     3841 cgagtcactg gagcaggtct agtgcttact tagcagctcc tccagcagcc atgccccacc
     3901 ccccaccccc cacacagcgc cacagttaag tagctgttgt ggtagtcgta cccttcgtat
     3961 cacagtactc cttacaagga gccgttcgcc tgatgagtct ctggaatgtg tgtgtatctg
     4021 ctttccctcc cagagtgcat cggagacact gcatctatgc agatgcttca gtgctgtcca
     4081 ccgaggcaga aaaagctctt tcttgcagtt gtggttgggg tggttgctgg aaggttcagc
     4141 taccattatt aatattgaag gtgggaggtc tcagtggcac agagcagcag caccgtaata
     4201 gtaaaagaca gcatcctggg acagggacag gagtgcctgc atttgcaaaa atctgactcc
     4261 agtgagcaag gtgaggtgtt gtgagtctga agctgcaaat acgtcattca tttgacaagc
     4321 tttaaaacag ttatgatttc taaaaattca gagtaaataa aaaccacatc cattcta
//
