LOCUS       NM_026175               4916 bp    mRNA    linear   ROD 02-JUN-2024
DEFINITION  Mus musculus splicing factor 3a, subunit 1 (Sf3a1), mRNA.
ACCESSION   NM_026175
VERSION     NM_026175.5
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 4916)
  AUTHORS   Diaz-Hernandez,J.I., Sebastian-Serrano,A., Gomez-Villafuertes,R.,
            Diaz-Hernandez,M. and Miras-Portugal,M.T.
  TITLE     Age-related nuclear translocation of P2X6 subunit modifies splicing
            activity interacting with splicing factor 3A1
  JOURNAL   PLoS One 10 (4), e0123121 (2015)
   PUBMED   25874565
  REMARK    GeneRIF: once inside the nucleus, P2X6 subunit interacts with the
            splicing factor 3A1, which ultimately results in a reduction of the
            mRNA splicing activity
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4916)
  AUTHORS   O'Connor,B.P., Danhorn,T., De Arras,L., Flatley,B.R., Marcus,R.A.,
            Farias-Hesson,E., Leach,S.M. and Alper,S.
  TITLE     Regulation of toll-like receptor signaling by the SF3a mRNA
            splicing complex
  JOURNAL   PLoS Genet 11 (2), e1004932 (2015)
   PUBMED   25658809
  REMARK    GeneRIF: in macrophages, SF3a has significant preference for mRNA
            splicing events within innate immune signaling pathways compared
            with other biological pathways, thereby affecting the splicing of
            specific genes in the TLR signaling pathway
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 4916)
  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
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AI115048.1, AK028829.1, AK160061.1, AK030115.1 and AL807825.5.
            
            On Jan 18, 2008 this sequence version replaced NM_026175.4.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK030223.1, AK004763.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-49                AI115048.1         2-50
            50-902              AK028829.1         2-854
            903-2288            AK160061.1         886-2271
            2289-4095           AK030115.1         815-2621
            4096-4916           AL807825.5         53492-54312
FEATURES             Location/Qualifiers
     source          1..4916
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="11"
                     /map="11 2.91 cM"
     gene            1..4916
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /note="splicing factor 3a, subunit 1"
                     /db_xref="GeneID:67465"
                     /db_xref="MGI:MGI:1914715"
     exon            1..197
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /inference="alignment:Splign:2.1.0"
     CDS             135..2510
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /note="splicing factor 3 subunit 1; SF3a120"
                     /codon_start=1
                     /product="splicing factor 3A subunit 1"
                     /protein_id="NP_080451.4"
                     /db_xref="CCDS:CCDS24380.1"
                     /db_xref="GeneID:67465"
                     /db_xref="MGI:MGI:1914715"
                     /translation="MQAGPVQAVPPPPPVATESKQPIEEEASSKEDPTPSKPVVGIIY
                     PPPEVRNIVDKTASFVARNGPEFEARIRQNEINNPKFNFLNPNDPYHAYYRHKVSEFK
                     EGKAQEPSAAIPKVMQQQQQATQQQLPQKVQAQVIQETIVPKEPPPEFEFIADPPSIS
                     AFDLDVVKLTAQFVARNGRQFLTQLMQKEQRNYQFDFLRPQHSLFNYFTKLVEQYTKI
                     LIPPKGLFSKLKKEAENPREVLDQVCYRVEWAKFQERERKKEEEEKEKERVAYAQIDW
                     HDFVVVETVDFQPNEQGNFPPPTTPEELGARILIQERYEKFGESEEVEMEVESDEEDQ
                     EKAEETPSQLDQDTQVQDMDEGSDDEEEGQKVPPPPETPMPPPLPPTPDQVIVRKDYD
                     PKASKPLPPAPAPDEYLVSPITGEKIPASKMQEHMRIGLLDPRWLEQRDRSIREKQSD
                     DEVYAPGLDIESSLKQLAERRTDIFGVEETAIGKKIGEEEIQKPEEKVTWDGHSGSMA
                     RTQQAAQANITLQEQIEAIHKAKGLVPEDDTKEKIGPSKPNEIPQQPPPPSSATNIPS
                     SAPPITSVPRPPAMPPPVRTTVVSAVPVMPRPPMASVVRLPPGSVIAPMPPIIHAPRI
                     NVVPMPPAAPPIMAPRPPPMIVPTAFVPAPPVAPVPAPAPMPPVHPPPPMEDEPPSKK
                     LKTEDSLMPEEEFLRRNKGPVSIKVQVPNMQDKTEWKLNGQGLVFTLPLTDQVSVIKV
                     KIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMASGAVIHLALKERGGRKK"
     exon            198..319
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            320..527
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            528..785
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            786..860
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            861..1011
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1012..1199
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1200..1317
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1318..1503
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1504..1625
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1626..1871
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1872..2079
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            2080..2234
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            2235..2336
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            2337..2408
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            2409..4916
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2856..2861
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /note="hexamer: ATTAAA"
     polyA_site      2913
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /note="major polyA site"
     regulatory      2976..2981
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /note="hexamer: ATTAAA"
     polyA_site      3005
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /note="major polyA site"
     regulatory      4862..4867
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /note="hexamer: ATTAAA"
     polyA_site      4885
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
     regulatory      4897..4902
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
                     /note="hexamer: TATAAA"
     polyA_site      4916
                     /gene="Sf3a1"
                     /gene_synonym="1200014H24Rik; 5930416L09Rik"
ORIGIN      
        1 tgctcccgcg gcttctctct ctgggtcgcc gccatcttgt cattgagttg gatacttcgt
       61 gtggtgatct ttaatcttgt cgtcgcaccg gttgtcgcca ccgaggtgga ctggcagccc
      121 tgagcgtcgc agtcatgcag gccggacccg tgcaggcggt acccccgccg ccgccagtag
      181 ccactgagtc caaacagcca attgaagaag aagcatcgtc aaaggaggat cccacccctt
      241 ccaagccagt ggtcggcatt atttaccctc ccccggaggt caggaacatc gtcgacaaga
      301 ctgccagttt tgtggccaga aatgggcctg aatttgaagc taggattcga cagaatgaga
      361 tcaacaaccc caagttcaat ttcttaaatc ccaatgaccc ttaccatgcc tactaccgcc
      421 acaaggtcag cgagttcaag gaggggaagg ctcaggagcc ctcagctgcc atccccaagg
      481 ttatgcagca gcagcagcaa gctacgcaac agcagctgcc ccagaaggtc caagcccagg
      541 tgatccaaga gaccatagta ccgaaggagc cccctcctga gtttgagttc atcgctgatc
      601 ccccctccat ctcagccttc gacctggatg tagtgaagct gacagctcag tttgtggcca
      661 ggaatgggcg tcagtttctg acccagctga tgcagaaaga gcagcgcaac taccagtttg
      721 actttctccg accccagcac agcctcttca actacttcac aaagctggtg gagcagtata
      781 ccaagatctt gattccaccc aaaggcttat tttcaaagct caagaaagag gctgaaaatc
      841 ctcgagaagt tttggaccag gtttgttacc gagtagaatg ggccaaattt caggaacgtg
      901 agaggaagaa ggaagaagag gagaaagaga aggagcgagt agcttatgct cagattgact
      961 ggcatgattt tgtggtggtg gagacagtgg attttcaacc caatgagcaa ggaaactttc
     1021 cacccccaac aacaccagag gaactgggag ctcggatcct cattcaggag cgctacgaga
     1081 agtttgggga gagcgaggaa gtggagatgg aggttgagtc agatgaggaa gatcaggaga
     1141 aggccgagga gactccttcc cagctggacc aggatactca agtacaggac atggatgagg
     1201 gttcagatga tgaagaagaa gggcagaaag tgcctccacc cccagagaca cccatgcctc
     1261 cacctctgcc cccaacacca gaccaagtca ttgtgcggaa ggactatgat cccaaagctt
     1321 ccaagcccct ccctccagcc cctgctcccg atgagtatct tgtatccccc atcactgggg
     1381 agaagattcc tgccagcaaa atgcaggagc acatgcgcat tgggcttctt gacccccgct
     1441 ggctggagca gcgggaccgc tccatccgag agaagcagag tgatgatgag gtttatgcac
     1501 caggtctgga tattgagagc agcttaaagc agttggctga gcgacgtact gacatctttg
     1561 gggtagaaga gacagccatt ggtaagaaga ttggtgaaga ggagatccag aagccagagg
     1621 agaaggtgac ttgggatggc cattcaggca gcatggcccg gacccagcag gctgcccagg
     1681 ccaacatcac cctccaggag cagattgagg ccatccataa ggccaagggc ctggtgccgg
     1741 aagatgacac taaggagaag attggcccca gcaagcccaa tgaaatccct cagcagccac
     1801 cacctccatc ttcagccacc aatatcccca gctcagcacc ccccattaca tcagtgcccc
     1861 ggccacctgc gatgccacct ccagtccgca ccactgttgt atctgcagta cctgtcatgc
     1921 ctcggccacc catggcatct gtggtccggc tgcccccagg ctcagtgatt gcccccatgc
     1981 cacccatcat ccacgcaccc aggatcaatg tggtacctat gcctcctgca gcacctccca
     2041 tcatggcgcc ccgcccacct cccatgattg tgccaacagc ctttgtgcct gccccacctg
     2101 tggctccagt cccagcccca gctccaatgc ctcctgtaca ccccccacct cctatggagg
     2161 atgagcctcc atccaagaaa ctaaagaccg aggacagtct catgcctgag gaagaattcc
     2221 tgcgcaggaa caagggtcca gtatccatca aagtgcaggt acccaacatg caggataaga
     2281 cggaatggaa gctgaatggt caggggctgg tcttcactct cccactcaca gaccaggtct
     2341 ctgtcatcaa agtgaagatt catgaagcca cgggcatgcc tgcggggaaa cagaaactac
     2401 agtatgaagg catcttcatc aaggattcca actccctggc ttactacaac atggccagtg
     2461 gtgctgtcat ccacttggcc ctcaaggaga gaggcggcag gaagaagtag caagagatac
     2521 tgcaattgaa accttgccat tgtacctctt tgcaccacca attccaggag tgtccctggg
     2581 gcctcaggca cagcctgggc atttgtttcc ctcaaagcca gtctacggaa tgaatatctt
     2641 gtttcaattc tggattggag gtccttcaag gaagtccatt agaagttgaa tacccagggt
     2701 tgtcccacag gacagtttca cactatcgag tgatgcttag ttaatagaat atggttaatg
     2761 ccattcatca ttttgtatca tgctttggtt tcttgaagcc aggcatagta catgcatgcc
     2821 tgtgatcctg ggacttggga tgtgtgggca gaagaattaa atgttcaatg ttcacctcgg
     2881 ctgtatagct tgaggccaga ctgggctgtg tgagatactg tgttttggtt ttttgttgtt
     2941 gttgttgttt ttggtgggtt ttttttttgt ttttaattaa aaaccgaaca cttcttggac
     3001 cttcatggaa gcagtttgtc cctgccatcc acagactggc ttagaaagct ctgccattct
     3061 tacctatgca gggatagcta gtgcacaaca actctcctaa ggacaagggt gaaattccaa
     3121 gtcaattaat agggaaacaa atggatcgct gagctttggg gtctctgcag tcttgatgct
     3181 tataatatgt ttttgctgcc atcgtgcctt tcaagtactt ctaaagcatc gtggctgggg
     3241 agatgccttg gtgagtacag tgcttacggt gcaagaactg atgtaagagc cactagaaca
     3301 agccactgct accctgtgca ctaggagaca agacaggcag agtcatccta gcaggccagt
     3361 gaatgagaaa gacctggaag gcaagggtga acacctatgg ctgtcttctg gtctccatgt
     3421 gtttgccgca gcatggcttt atagagatac gcacgttcta tatttgtacg ttttatattt
     3481 gtaaagcttc aggaccctcc accatgcagt agccatagaa caaggatcag tagctttttc
     3541 catacctcaa atcgcccatc acttgatagg catagcagtt ttagtggttt gctctagggt
     3601 gggcaaaggc cgttcattac tatgtgtgtg gttaattatg ccaaatccac atactgacct
     3661 aagggccttg tatctagttt actactactg tgttgtattt ggtatttttg tttttctttg
     3721 gttttgttat agctccactg gaacttgcta tataggttag gctggttttg aacacattga
     3781 ggtcagcctg cttctgcctc ccaagtgctg gaattaaagg catggaccgg caagcttgac
     3841 actgcttcct gttgaagcac ttgtgtagca cctgtggagt ccttgtgtga ttattcttgt
     3901 tcgaggtact tagggcaagt cacatgccct ccatcccatg gctcagagat gaagagtaaa
     3961 tccaaaacat gtgcctcgct cttggtcact aactgctgtc ctgatgtggg ttattatttt
     4021 tggagttgtg gtcttgtgga ggcatgggtg gtgttgctgt gtgtattcag agggagggga
     4081 gagtggagag tgtgttgata agctgtaaac aaagctggtt tctttttgga ggactgcatg
     4141 tgctgaaagc ttcagagttc ccagtccaga agcagtattc taactcccag cccctccacc
     4201 ttttcctttc tcagccgagg cctctacagc accagtcact tggctccatt acacattgtt
     4261 aggcgcacat ttaagatcat tgatgtcatg ctagtctgta cccctgtgtg acttggccta
     4321 ggaactagtg caaaatttgg tttgttggtg tgcttttctg gtttaggagc ctgaaacaag
     4381 cacactgtgc tagagactag ttgggtagca ccagaaatcc cctggaggga tttccaggag
     4441 gaggaggggg tactgttgta tgggaggagc atcaggaagt ctcagagaat ccatgcctaa
     4501 gagctccttt ttggtattaa ggacatggca ttatgtcagg gcatatgcct ctatagattg
     4561 gcaaacccca cagtgcctct atggctgagg ctgtgacatg agaccaagaa tgtgactggg
     4621 tagaatgcaa gtgaatgggc cctttgatcc aggctcggga gctaacagtt cccagaattc
     4681 ctgaatgagt gcctgtcctg actcacattc acttggaggc tcattgacca cagagccttg
     4741 tgacctttgg tggccacaga ccaagattgt tttctagcac tgcatgtcct acagtcttgt
     4801 aagtttaaaa agtgcttatc caaatgtaag ttttaacatt tttataaaaa taagttgttc
     4861 tattaaaaaa taagtatcat ttttatatgt attatgtata aattactttg gtcata
//
