LOCUS       NM_001370632            3189 bp    mRNA    linear   ROD 04-FEB-2025
DEFINITION  Mus musculus pre-mRNA processing factor 40B (Prpf40b), transcript
            variant 3, mRNA.
ACCESSION   NM_001370632 XM_006521181
VERSION     NM_001370632.1
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 3189)
  AUTHORS   Shen,C.L., Tsai,Y.Y., Chou,S.J., Chang,Y.M. and Tarn,W.Y.
  TITLE     RBM4-mediated intron excision of Hsf1 induces BDNF for cerebellar
            foliation
  JOURNAL   Commun Biol 7 (1), 1712 (2024)
   PUBMED   39738787
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3189)
  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
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC161198.5.
            
            On May 17, 2019 this sequence version replaced XM_006521181.1.
            
            Transcript Variant: This variant (3) encodes the longest isoform
            (3).
            
            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 :: SRR7345562.396582.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-36                AC161198.5         207385-207420
            37-117              AC161198.5         215430-215510
            118-261             AC161198.5         216188-216331
            262-327             AC161198.5         216572-216637
            328-355             AC161198.5         217313-217340
            356-381             AC161198.5         217555-217580
            382-492             AC161198.5         217688-217798
            493-613             AC161198.5         218098-218218
            614-638             AC161198.5         218309-218333
            639-842             AC161198.5         218543-218746
            843-969             AC161198.5         218952-219078
            970-1034            AC161198.5         219160-219224
            1035-1199           AC161198.5         219704-219868
            1200-1308           AC161198.5         219969-220077
            1309-1459           AC161198.5         220338-220488
            1460-1593           AC161198.5         221210-221343
            1594-1708           AC161198.5         221832-221946
            1709-1800           AC161198.5         222091-222182
            1801-1917           AC161198.5         226725-226841
            1918-2055           AC161198.5         226990-227127
            2056-2151           AC161198.5         227338-227433
            2152-2253           AC161198.5         227627-227728
            2254-2431           AC161198.5         227870-228047
            2432-2493           AC161198.5         228234-228295
            2494-2631           AC161198.5         228390-228527
            2632-3189           AC161198.5         228608-229165
FEATURES             Location/Qualifiers
     source          1..3189
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="15"
                     /map="15 56.13 cM"
     gene            1..3189
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /note="pre-mRNA processing factor 40B"
                     /db_xref="GeneID:54614"
                     /db_xref="MGI:MGI:1925583"
     exon            1..36
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     CDS             34..2724
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /note="isoform 3 is encoded by transcript variant 3;
                     huntington yeast partner C; pre-mRNA-processing factor 40
                     homolog B; huntingtin yeast partner C;
                     huntingtin-interacting protein C; PRP40 pre-mRNA
                     processing factor 40 homolog A; PRP40 pre-mRNA processing
                     factor 40 homolog B"
                     /codon_start=1
                     /product="pre-mRNA-processing factor 40 homolog B isoform
                     3"
                     /protein_id="NP_001357561.1"
                     /db_xref="GeneID:54614"
                     /db_xref="MGI:MGI:1925583"
                     /translation="MSVPDSGPRPPAAPAPFPPGPPMMPPPFMPPPGLPPPFPPMGLP
                     PMSQRPPAIPPMPPGILPPMLPPMGAPPPLTQIPGMVPPMMPGMLMPAVPVTAATAPG
                     ADTASSAVAGTGPPRALWSEHVAPDGRIYYYNADDKQSVWEKPSVLKSKAELLLSQCP
                     WKEYKSDTGKPYYYNNQSQESRWTRPKDLDDLEALVKQESAGKQQTQQLQTLQPQPPQ
                     PQPDPPPIPPGPIPVPMALLEPEPGRSEDCDVLEAAQPLEQGFLQREEGPSSSTGQHR
                     QPQEEEEAKPEPERSGLSWSNREKAKQAFKELLRDKAVPSNASWEQAMKMVVTDPRYS
                     ALPKLSEKKQAFNAYKAQREKEEKEEARLRAKEAKQTLQHFLEQHERMTSTTRYRRAE
                     QTFGDLEVWAVVPERERKEVYDDVLFFLAKKEKEQAKQLRRRNIQALKSILDGMSSVN
                     FQTTWSQAQQYLMDNPSFAQDQQLQNMDKEDALICFEEHIRALEREEEEERERARLRE
                     RRQQRKNREAFQSFLDELHETGQLHSMSTWMELYPAVSTDVRFANMLGQPGSTPLDLF
                     KFYVEELKARFHDEKKIIKDILKDRGFCVEVNTAFEDFAHVISFDKRAAALDAGNIKL
                     TFNSLLEKAEAREREREKEEARRMRRREAAFRSMLRQAVPALELGTAWEEVRERFVCD
                     SAFEQITLESERIRLFREFLQVLEQTECQHLHTKGRKHGRKGKKHHRKRSHSPSVSRQ
                     GSESDEEELPPPSLRPPKRRRRNPSESGSEPSSSLDSVESGGAALGGPGSPSSHLLLG
                     SDHGLRKTKKPKKKTKKRRHKSTSPDSETDPEDKAGKESEDREQEQDREPRQAELPNR
                     SPGFGIKKEKTGWDTSESELSEGELERRRRTLLQQLDDHQ"
     exon            37..117
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            118..261
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            262..327
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            328..355
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            356..381
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            382..492
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            493..613
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            614..638
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            639..842
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            843..969
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            970..1034
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            1035..1199
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            1200..1308
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            1309..1459
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            1460..1593
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            1594..1708
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            1709..1800
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            1801..1917
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            1918..2055
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            2056..2151
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            2152..2253
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            2254..2431
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            2432..2493
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            2494..2631
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     exon            2632..3189
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3164..3169
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /note="hexamer: AATAAT"
     polyA_site      3189
                     /gene="Prpf40b"
                     /gene_synonym="2610317D23Rik; Hypc"
                     /note="major polyA site"
ORIGIN      
        1 gccgagccgg cccagctgct ctgaggctct ggcatgtcgg ttcccgattc tggtccccgg
       61 cccccagcag cgcctgcccc cttcccaccg gggcccccca tgatgccacc acccttcatg
      121 ccccctccag ggctcccacc tccttttcct ccgatggggc tcccccctat gagtcagaga
      181 ccaccagcca ttccccccat gccacctggc atactgcccc caatgcttcc accaatgggg
      241 gcaccgccac cacttacaca gataccagga atggtccctc caatgatgcc ggggatgctg
      301 atgccagcgg tgcctgtcac tgcagcgacg gctccgggtg cggacaccgc cagctctgct
      361 gtggctggaa caggccctcc gagggcctta tggagtgagc acgtagcccc tgacgggcgc
      421 atctactact acaatgctga tgataagcaa tccgtgtggg agaagcccag cgtactcaag
      481 tctaaggcag agctgctgct gtcccagtgt ccctggaaag agtataagtc agatacaggg
      541 aagccttact actacaacaa ccagagtcag gagtcccggt ggactcggcc caaggacctg
      601 gatgacctgg aagccctcgt caaacaagag tctgcaggaa aacagcagac ccagcaacta
      661 cagacactac agccacaacc acctcagcca cagcctgacc ctccacctat acctccgggt
      721 cccatcccag tgcctatggc cctcctggaa cctgaaccag gtcgaagtga agactgtgat
      781 gtgctggagg ctgcccagcc cctggagcag ggcttcctgc agcgggagga gggccccagc
      841 agctctactg gacagcatcg gcagccacag gaagaggagg aagctaagcc agaaccagag
      901 cgatctggcc tcagttggag caaccgggag aaggcaaaac aggctttcaa agaactgcta
      961 agggacaagg ctgtcccttc caatgcttca tgggaacagg ccatgaagat ggtagtcact
     1021 gacccccgct acagtgcctt gcccaaacta agtgagaaga agcaggcgtt taatgcttac
     1081 aaggctcagc gggagaagga ggagaaagag gaggcccggc tgagagccaa ggaggccaag
     1141 cagaccctgc agcatttcct ggaacagcat gaacgcatga cctccaccac ccgctaccgg
     1201 cgggcagaac agacttttgg ggacctggag gtctgggctg tggtccctga gagagagaga
     1261 aaggaagttt atgatgatgt cctcttcttc ctggccaaga aggagaagga acaagccaag
     1321 cagctccggc gtcggaatat ccaggccctg aagagcatcc tggatgggat gagcagtgtc
     1381 aacttccaaa ccacttggtc ccaggcccag cagtacctca tggataaccc cagctttgct
     1441 caggaccagc agctgcagaa catggacaag gaagatgcac ttatctgctt tgaggagcat
     1501 atccgggctt tggagagaga ggaggaggaa gagcgagaac gggcccggct tcgggagcgg
     1561 cgacagcagc ggaagaatcg ggaggccttt cagagcttcc tggacgagct gcatgagaca
     1621 gggcagctgc actccatgtc cacctggatg gagctgtacc cggcagtcag cactgacgtt
     1681 cgctttgcca acatgctggg ccagccgggc tctactcctt tggacttgtt caagttctat
     1741 gtggaggagt tgaaggctcg attccacgat gagaagaaga tcataaagga tatccttaag
     1801 gatcggggct tctgtgtgga ggtgaacaca gcatttgagg acttcgccca cgtcataagc
     1861 tttgacaaga gggctgctgc gctggacgca ggcaacatca agctgacctt caatagtctg
     1921 ctggaaaaag cagaggcacg ggagagggaa cgggaaaagg aggaggcccg aaggatgcgg
     1981 cgcagagaag ctgcctttcg aagcatgctg aggcaggccg tgcctgctct ggagctgggc
     2041 actgcctggg aagaggtccg tgagcgcttt gtgtgcgact cagcctttga gcagatcacc
     2101 ctggagtcgg agcggatccg gctcttccga gagttcctgc aggtgttgga gcagactgaa
     2161 tgccagcacc tccacaccaa aggccgaaag catggcagaa agggcaagaa acaccatcgc
     2221 aagcgttcac actcaccctc agtgagtcgg cagggctctg agtcagatga agaggagctg
     2281 cccccaccat ccctccggcc ccccaagcgg aggaggcgga acccctcaga atctggctct
     2341 gagccctcct cctcacttga ttcagttgaa agtgggggtg ctgctcttgg aggaccaggc
     2401 tccccatctt cccaccttct tcttgggtca gatcatggtc ttcggaaaac caagaaacca
     2461 aaaaagaaaa ccaagaaaag aagacacaag tcgaccagtc ctgacagtga gacggacccc
     2521 gaagacaaag ctggtaagga gagtgaagac agagaacagg aacaggacag ggaaccccgg
     2581 caggcagagc tccctaaccg ttccccaggc ttcggaatca agaaggagaa gacaggctgg
     2641 gacacgtcag aaagcgagct gagtgagggg gagctggaga ggcgaaggcg gacactccta
     2701 cagcagctgg acgaccacca atgaccccac gagctacttt ctgccttgga cttcgtgagg
     2761 cagtggctcc agggtcgcct cagcatctgc ctcagactcc ttcgtcttgt ctggtctgtg
     2821 tccacttttc ctaaagtaac ccacccccaa cacactactg ttagcacctc tcaaggttgc
     2881 ttttggtgtt caagggtccc ctagttctca gactagtgca gtccttgccc tcagccccag
     2941 accagagatg ggcagtctat accacggggt gggtgatgcc agtagatagt gtgagaaggg
     3001 gtctccagga aagagacagg ctgcttggac acagcctggg tggccgaggg cagggtcctc
     3061 accctctagc atcagtgcct gctcttgcct gacctggccc tggggctcca ccactacttc
     3121 ctctcccctg ggacccgatg tatgtgttct gttttgtttt ttaaataata tttataacat
     3181 gatctacaa
//
