LOCUS       NM_001417087            4434 bp    mRNA    linear   ROD 14-JUN-2024
DEFINITION  Mus musculus SR-related CTD-associated factor 4 (Scaf4), transcript
            variant 4, mRNA.
ACCESSION   NM_001417087 XM_006523008
VERSION     NM_001417087.1
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 4434)
  AUTHORS   McKee,A.E., Minet,E., Stern,C., Riahi,S., Stiles,C.D. and
            Silver,P.A.
  TITLE     A genome-wide in situ hybridization map of RNA-binding proteins
            reveals anatomically restricted expression in the developing mouse
            brain
  JOURNAL   BMC Dev Biol 5, 14 (2005)
   PUBMED   16033648
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4434)
  AUTHORS   Willnow,T., Antignac,C., Brandli,A., Christensen,E., Cox,R.,
            Davidson,D., Davies,J., Devuyst,O., Eichele,G., Hastie,N.,
            Verroust,P., Schedl,A. and Meij,I.
  TITLE     The European renal genome project: an integrated approach towards
            understanding the genetics of kidney development and disease
  JOURNAL   Organogenesis 2 (2), 42-47 (2005)
   PUBMED   19521566
REFERENCE   3  (bases 1 to 4434)
  AUTHORS   Taniwaki,T., Haruna,K., Nakamura,H., Sekimoto,T., Oike,Y.,
            Imaizumi,T., Saito,F., Muta,M., Soejima,Y., Utoh,A., Nakagata,N.,
            Araki,M., Yamamura,K. and Araki,K.
  TITLE     Characterization of an exchangeable gene trap using pU-17 carrying
            a stop codon-beta geo cassette
  JOURNAL   Dev Growth Differ 47 (3), 163-172 (2005)
   PUBMED   15840001
REFERENCE   4  (bases 1 to 4434)
  AUTHORS   Okazaki,N., F-Kikuno,R., Ohara,R., Inamoto,S., Koseki,H.,
            Hiraoka,S., Saga,Y., Seino,S., Nishimura,M., Kaisho,T., Hoshino,K.,
            Kitamura,H., Nagase,T., Ohara,O. and Koga,H.
  TITLE     Prediction of the coding sequences of mouse homologues of KIAA
            gene: IV. The complete nucleotide sequences of 500 mouse
            KIAA-homologous cDNAs identified by screening of terminal sequences
            of cDNA clones randomly sampled from size-fractionated libraries
  JOURNAL   DNA Res 11 (3), 205-218 (2004)
   PUBMED   15368895
REFERENCE   5  (bases 1 to 4434)
  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   6  (bases 1 to 4434)
  AUTHORS   Gitton,Y., Dahmane,N., Baik,S., Ruiz i Altaba,A., Neidhardt,L.,
            Scholze,M., Herrmann,B.G., Kahlem,P., Benkahla,A., Schrinner,S.,
            Yildirimman,R., Herwig,R., Lehrach,H. and Yaspo,M.L.
  CONSRTM   HSA21 expression map initiative
  TITLE     A gene expression map of human chromosome 21 orthologues in the
            mouse
  JOURNAL   Nature 420 (6915), 586-590 (2002)
   PUBMED   12466855
REFERENCE   7  (bases 1 to 4434)
  AUTHORS   Reymond,A., Marigo,V., Yaylaoglu,M.B., Leoni,A., Ucla,C.,
            Scamuffa,N., Caccioppoli,C., Dermitzakis,E.T., Lyle,R., Banfi,S.,
            Eichele,G., Antonarakis,S.E. and Ballabio,A.
  TITLE     Human chromosome 21 gene expression atlas in the mouse
  JOURNAL   Nature 420 (6915), 582-586 (2002)
   PUBMED   12466854
REFERENCE   8  (bases 1 to 4434)
  AUTHORS   Araki,K., Imaizumi,T., Sekimoto,T., Yoshinobu,K., Yoshimuta,J.,
            Akizuki,M., Miura,K., Araki,M. and Yamamura,K.
  TITLE     Exchangeable gene trap using the Cre/mutated lox system
  JOURNAL   Cell Mol Biol (Noisy-le-grand) 45 (5), 737-750 (1999)
   PUBMED   10512203
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC139573.4.
            
            On Feb 24, 2023 this sequence version replaced XM_006523008.5.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR13422600.296032.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMN00849374,
                                           SAMN00849375 [ECO:0006172]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-484               AC139573.4         156997-157480       c
            485-568             AC139573.4         136087-136170       c
            569-613             AC139573.4         135168-135212       c
            614-775             AC139573.4         133135-133296       c
            776-911             AC139573.4         131705-131840       c
            912-1051            AC139573.4         130976-131115       c
            1052-1201           AC139573.4         130247-130396       c
            1202-1395           AC139573.4         125251-125444       c
            1396-1504           AC139573.4         124869-124977       c
            1505-1888           AC139573.4         123048-123431       c
            1889-1974           AC139573.4         122621-122706       c
            1975-2165           AC139573.4         121507-121697       c
            2166-2266           AC139573.4         120639-120739       c
            2267-2380           AC139573.4         120164-120277       c
            2381-2537           AC139573.4         118375-118531       c
            2538-2695           AC139573.4         117204-117361       c
            2696-2861           AC139573.4         116038-116203       c
            2862-2948           AC139573.4         115866-115952       c
            2949-3140           AC139573.4         115521-115712       c
            3141-4434           AC139573.4         101945-103238       c
FEATURES             Location/Qualifiers
     source          1..4434
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="16"
                     /map="16 51.57 cM"
     gene            1..4434
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /note="SR-related CTD-associated factor 4"
                     /db_xref="GeneID:224432"
                     /db_xref="MGI:MGI:2146350"
     exon            1..484
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     CDS             455..4087
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /note="isoform 4 is encoded by transcript variant 4;
                     splicing factor, arginine/serine-rich 15;
                     serine/arginine-rich splicing factor 15; CTD-binding
                     SR-like protein RA4; SR-related and CTD-associated factor
                     4"
                     /codon_start=1
                     /product="SR-related and CTD-associated factor 4 isoform
                     4"
                     /protein_id="NP_001404016.1"
                     /db_xref="GeneID:224432"
                     /db_xref="MGI:MGI:2146350"
                     /translation="MDAVNAFNQELFSLMDMKPPISRAKMILITKAAIKAIKLYKHVV
                     QIVEKFIKKCKPEYKVPGLYVIDSIVRQSRHQFGTDKDVFGPRFSKNITATFQYLYLC
                     PSEDKSKIVRVLNLWQKNGVFKIEIIQPLLDMAAGTSNAAPVAENVTNNEGSPPPPVK
                     ISSELAQAPTNSMPTVAQLPSSDAFAAVAQLFQTTQGQQLQQILQTFQQPPQPQSPAL
                     DSAVMAQVQAITAQLKTAPTQPPEQKTAFDKKLLDRFDYDDEPEAVEDSKKEDAAAIS
                     TAALATAAPPAPTAATPAVATAVPVPSATSPPPPQTPFGYPGDGVQQPAYTQHQSMDQ
                     FQPRMMPIQQDTMHHQVPLPPNGQMPGFGLLSAPPPFPPMPQPGMPQPGMAQPGLAQP
                     GMAQPTMPQPGMPQPGMPQPGMAQPGLAQPGMAQPGMPQPAMPQPAMPQPGMAQPGVS
                     PAPPVQPTFQSTFQPQNEPHSQKPHQQVEMEVEQPCVTEVKRHVPESRKSRSRSASRS
                     PKRRRSRSGSRSRRSRHRRSRSRSRDRRRHSPRSRSQERRDREKERERRQKGLPQIKS
                     ETASVCSTTLWVGQLDKRTTQQDVASLLEEFGPIESINMIPPRGCAYIVMVHRQDAYR
                     ALQKLSRGNYKVNQKSIKIAWALNKGIKADYKQYWDVELGVTYIPWDKVKAEELESFC
                     EGGMLDSDTLNPDWKGIPKKPDNEVAQNGGAETSHTEPVSPIPKPVPVPVPPIPVPAP
                     ITVPPPQVPPHQPGPPVVGALQPPAFTPPLGMPPPGFGPGVPPPPPPPPFLRPGFNPM
                     HLPPGFLPPGPPPPITPPVSIPPPHTPPISIPNSTIAGINEDTTKDLSIGNPIPTVVS
                     GARGNAESGDSAKMYGSAGPPAAPTSLPTPPVTQPVSLLGTQGVAPGPVIGLQAPSTG
                     LLGARPGLIPLQRPPGMPPPHLQRFPMMPPRPMPPHMMHRGPPPGPGGFAMPPPHGMK
                     GPFPPHGPFVRPGGMPGLGGPGPGPGASEDRDGRQQQPQQQPPPQQQQQQQQPQQQPP
                     QQSPSQQPAPAQQQPPQFRNDSRQQFNSGRDQERFGRRSFGSRVENDRERYGSRNDDR
                     DNSNRERREWGRRSPDRDRHRDLEERSRRSSGHRDRDRDSRDRESRREKEENRKEKHE
                     VADRAGGNKAVEPPLSQVGTIDTVSELNKGEAMATVVKPEESPAEVTSPVGPEKDPGS
                     AAEPPR"
     exon            485..568
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     exon            569..613
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     exon            614..775
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     exon            776..911
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     exon            912..1051
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     exon            1052..1201
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     exon            1202..1395
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     exon            1396..1504
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     exon            1505..1888
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     exon            1889..1974
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     exon            1975..2165
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     exon            2166..2266
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     exon            2267..2380
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     exon            2381..2537
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     exon            2538..2695
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     exon            2696..2861
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     exon            2862..2948
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     exon            2949..3140
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     exon            3141..4434
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4411..4416
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /note="hexamer: AATAAA"
     polyA_site      4434
                     /gene="Scaf4"
                     /gene_synonym="Sfrs15; Sra4; Srsf15"
                     /note="major polyA site"
ORIGIN      
        1 agggtgcttc gcgcggcgtg cactcgggtc gctgccgcca tcctgctggc gaaagagagg
       61 agagagacag agaggcccgc ccgctcgccg gccgggccag tgtgggccag tgcgtgaggg
      121 agggcgcggg gggccgtgtc agcgcgacgc agagcgcagc cgccgccgcc aaacggacat
      181 gttggagccc cgcgctgccg ccgcctccca tccctcctcc ggcgcacggg actgagcagg
      241 ggcccgccgc ctctgcctgc gctcgaccgg cccagcctcg ccgcctcggc cgcagcccct
      301 tcctgctcgg cctccgccgc tcgtcgcctc ccgtcctcct ccccctccac gcccaagggc
      361 cctgccggca cccggcccta ctcagccgcc gctccaggtc taggtgaccg gcgggcccgg
      421 agcagccgca gccgccgccg caacgcgcgc gaacatggac gccgtcaacg ccttcaacca
      481 ggagctcttc tcacttatgg atatgaagcc tcccatctct agagccaaga tgattctcat
      541 tactaaagct gctatcaaag ctattaagct ttataagcac gttgttcaaa tagtagaaaa
      601 gttcatcaaa aagtgtaagc cagaatataa ggttccaggc ctgtatgtca tcgactccat
      661 cgtgagacag tctcggcacc agtttggaac tgataaagat gtttttgggc caagattctc
      721 taaaaatata actgctacat tccagtattt atatctttgt ccatctgaag ataagagtaa
      781 aatagttcgt gtgctaaatc tttggcaaaa aaatggagtg ttcaaaattg aaattattca
      841 gcctcttttg gacatggcag caggaaccag taatgctgct ccagtagcag aaaatgtcac
      901 caacaatgaa ggctcacctc cacccccagt aaaaatctct tctgaacttg cacaagctcc
      961 cacaaattcc atgcctactg tagcccagct gcccagctcc gatgcctttg ctgctgtggc
     1021 tcagctgttc cagacaactc aaggccagca gcttcagcag atccttcaga cttttcaaca
     1081 gcctccacaa ccacagtctc ccgcccttga cagtgctgtg atggctcagg ttcaggctat
     1141 cacagctcag ttaaagacag ctcctacaca gccacccgag caaaaaactg catttgacaa
     1201 gaagctgctt gatagattcg attacgatga cgagccagaa gctgtggaag actcaaagaa
     1261 agaggatgct gcagccatca gcaccgcagc ccttgccacg gctgcgcctc ctgcacccac
     1321 tgcagccaca cctgctgttg ccacggctgt gcctgtgccc tctgctacct ctccccctcc
     1381 tccacagacc ccatttgggt accctggaga tggcgtgcag cagccagcat acacacagca
     1441 tcaaagtatg gaccagtttc agcctcgaat gatgccaata cagcaggata cgatgcacca
     1501 tcaggttcca cttcctccta atggacagat gccaggattt gggcttcttt ctgcaccacc
     1561 tccatttcct cccatgcctc agccggggat gccgcagcct gggatggctc agccgggatt
     1621 ggcacagccg gggatggctc agcctacaat gccacagcca gggatgcctc agccagggat
     1681 gcctcagcct gggatggctc agccgggatt ggcacagccg gggatggctc agcctgggat
     1741 gcctcagcct gccatgcctc agcctgccat gcctcagccg gggatggctc agcctggggt
     1801 ttctccagct ccaccagtac agccaacttt ccaatcaact tttcagccac aaaatgaacc
     1861 ccattcacaa aaaccacatc agcaggtaga aatggaagta gagcagcctt gtgttacaga
     1921 ggttaagcgg catgtgcccg agagcagaaa gtcgagatcc aggtcagcat ccaggtcacc
     1981 aaaaaggaga agatctaggt ctggctctag gtctcggaga tcccgccacc gtcgctctcg
     2041 gtctcggtcc agggacaggc gccgacactc acctcgctct cgatctcaag aaagacggga
     2101 tcgagaaaaa gagagggaac ggcggcagaa aggcctccct cagatcaagt cagaaactgc
     2161 aagtgtttgt agtaccacac tgtgggtggg acaactggac aaaaggacta ctcagcagga
     2221 tgttgccagt ctcttagaag agtttggtcc aattgaatcg attaatatga ttcctcccag
     2281 gggctgtgcc tacatcgtca tggttcatag acaagatgca taccgtgccc tgcagaaact
     2341 gagccgagga aactacaagg tgaaccagaa atccataaag attgcctggg ccttgaacaa
     2401 aggaataaag gcggattata aacagtattg ggatgttgaa cttggtgtca cttacattcc
     2461 gtgggacaaa gtcaaagctg aggagctgga gagtttctgt gaaggaggca tgctggacag
     2521 tgacacactt aacccagatt ggaaaggcat ccccaagaag cctgacaatg aagttgccca
     2581 gaatggaggt gcagaaacct cccacacaga gccagtttcc cccataccta agcctgtgcc
     2641 tgtgccggtc cctcccatcc ctgttcctgc gcctataaca gtgccacctc cacaggtccc
     2701 gccccatcag ccgggccctc ctgttgtcgg tgctctccag ccgcccgctt tcacccctcc
     2761 cttaggaatg ccccctccag gctttggccc tggcgttcct cctccccctc ctcctccacc
     2821 atttttgcgc ccaggattca acccaatgca tttaccacca ggtttccttc ctcctggacc
     2881 cccacctcct ataactccac cagtatccat tcctccacct cacactccac caataagcat
     2941 cccaaactct actatcgctg gtataaatga agacactaca aaagacttat ctattggaaa
     3001 tcccattcca acagtggtgt ctggggctag aggaaatgcc gagtctggtg acagtgcgaa
     3061 aatgtatggt tctgctgggc cacctgctgc acccacgagt ctgcccaccc ctcctgtaac
     3121 ccagcctgtg tcactgcttg gcactcaagg agttgcaccg ggtcctgtaa ttgggctcca
     3181 ggcaccctct accggtcttc ttggtgccag acctggcctg atcccactcc agcgcccccc
     3241 agggatgcct ccaccacatt tgcaacggtt ccctatgatg ccacctcggc ccatgccacc
     3301 tcacatgatg cacagggggc caccaccagg accagggggc tttgccatgc ccccacctca
     3361 tggaatgaaa gggcccttcc caccacatgg cccctttgtt aggcctggtg ggatgccagg
     3421 gctggggggc ccagggccag gcccgggagc atcagaagac agagatggaa ggcagcaaca
     3481 accacagcag cagccaccgc cacagcagca gcagcagcag cagcagccgc agcagcagcc
     3541 accacagcag tcaccatcac agcagccagc gccagctcag cagcagccac cgcagtttag
     3601 aaatgatagc aggcagcagt tcaactcagg tagagaccaa gaaaggtttg gaagaagatc
     3661 ttttggaagt agggtggaaa atgaccggga acggtatggg agccgtaatg acgatagaga
     3721 taatagtaac cgtgaaagga gagagtgggg aagaaggagc cctgaccggg acaggcacag
     3781 agacttggaa gagagaagta gacgctctag tgggcatcgg gacagagaca gggattctag
     3841 agatagagag tcccgtagag agaaggaaga aaatcgaaag gagaagcacg aggtggcaga
     3901 cagggcaggt ggtaacaaag ctgtggaacc tccccttagc caagtgggaa ccatagacac
     3961 tgtctcagaa cttaataagg gggaggccat ggccacggtg gtaaagcctg aagagtcgcc
     4021 tgctgaggtt acctcacccg ttggacccga gaaggatcct ggctcagcag cagagcctcc
     4081 tcgctagaga ctggatgtga cagaatgtga cagtgacact tgggtgtaga acatgaggtg
     4141 tacagatgct gtataatatc cgctcctgct acatcatccc acagtagttg gtggggattg
     4201 taagcaattt gattgctttc cttctattta aaaatagcca aaaaaataac aaaaaatact
     4261 gaagatatat tacccttttt ttgctgtaac tttttaaaag ttttgacttt taaaagttta
     4321 caaatcctaa ttagaagtgc tctctatttt ttttttttaa tttaagataa ggtaacggtg
     4381 aaaagcccct caaaccatag ggatgttttt aataaactct attttcgtaa caaa
//
