LOCUS       NM_005877               5090 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens splicing factor 3a subunit 1 (SF3A1), mRNA.
ACCESSION   NM_005877
VERSION     NM_005877.6
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 5090)
  AUTHORS   Nameki,N., Terawaki,S.I., Takizawa,M., Kitamura,M., Muto,Y. and
            Kuwasako,K.
  TITLE     Structural insights into recognition of SL4, the UUCG stem-loop, of
            human U1 snRNA by the ubiquitin-like domain, including the
            C-terminal tail in the SF3A1 subunit of U2 snRNP
  JOURNAL   J Biochem 174 (2), 203-216 (2023)
   PUBMED   37094335
  REMARK    GeneRIF: Structural insights into recognition of SL4, the UUCG
            stem-loop, of human U1 snRNA by the ubiquitin-like domain,
            including the C-terminal tail in the SF3A1 subunit of U2 snRNP.
REFERENCE   2  (bases 1 to 5090)
  AUTHORS   Yang,F., Bian,T., Zhan,X., Chen,Z., Xing,Z., Larsen,N.A., Zhang,X.
            and Shi,Y.
  TITLE     Mechanisms of the RNA helicases DDX42 and DDX46 in human U2 snRNP
            assembly
  JOURNAL   Nat Commun 14 (1), 897 (2023)
   PUBMED   36797247
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 5090)
  AUTHORS   Cho,N.H., Cheveralls,K.C., Brunner,A.D., Kim,K., Michaelis,A.C.,
            Raghavan,P., Kobayashi,H., Savy,L., Li,J.Y., Canaj,H., Kim,J.Y.S.,
            Stewart,E.M., Gnann,C., McCarthy,F., Cabrera,J.P., Brunetti,R.M.,
            Chhun,B.B., Dingle,G., Hein,M.Y., Huang,B., Mehta,S.B.,
            Weissman,J.S., Gomez-Sjoberg,R., Itzhak,D.N., Royer,L.A., Mann,M.
            and Leonetti,M.D.
  TITLE     OpenCell: Endogenous tagging for the cartography of human cellular
            organization
  JOURNAL   Science 375 (6585), eabi6983 (2022)
   PUBMED   35271311
REFERENCE   4  (bases 1 to 5090)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   5  (bases 1 to 5090)
  AUTHORS   Zhang,Z., Will,C.L., Bertram,K., Dybkov,O., Hartmuth,K.,
            Agafonov,D.E., Hofele,R., Urlaub,H., Kastner,B., Luhrmann,R. and
            Stark,H.
  TITLE     Molecular architecture of the human 17S U2 snRNP
  JOURNAL   Nature 583 (7815), 310-313 (2020)
   PUBMED   32494006
REFERENCE   6  (bases 1 to 5090)
  AUTHORS   Kramer,A., Gruter,P., Groning,K. and Kastner,B.
  TITLE     Combined biochemical and electron microscopic analyses reveal the
            architecture of the mammalian U2 snRNP
  JOURNAL   J Cell Biol 145 (7), 1355-1368 (1999)
   PUBMED   10385517
REFERENCE   7  (bases 1 to 5090)
  AUTHORS   Neubauer,G., King,A., Rappsilber,J., Calvio,C., Watson,M., Ajuh,P.,
            Sleeman,J., Lamond,A. and Mann,M.
  TITLE     Mass spectrometry and EST-database searching allows
            characterization of the multi-protein spliceosome complex
  JOURNAL   Nat Genet 20 (1), 46-50 (1998)
   PUBMED   9731529
REFERENCE   8  (bases 1 to 5090)
  AUTHORS   Rain,J.C., Tartakoff,A.M., Kramer,A. and Legrain,P.
  TITLE     Essential domains of the PRP21 splicing factor are implicated in
            the binding to PRP9 and PRP11 proteins and are conserved through
            evolution
  JOURNAL   RNA 2 (6), 535-550 (1996)
   PUBMED   8718683
REFERENCE   9  (bases 1 to 5090)
  AUTHORS   Kramer,A., Mulhauser,F., Wersig,C., Groning,K. and Bilbe,G.
  TITLE     Mammalian splicing factor SF3a120 represents a new member of the
            SURP family of proteins and is homologous to the essential splicing
            factor PRP21p of Saccharomyces cerevisiae
  JOURNAL   RNA 1 (3), 260-272 (1995)
   PUBMED   7489498
REFERENCE   10 (bases 1 to 5090)
  AUTHORS   Chiara,M.D., Champion-Arnaud,P., Buvoli,M., Nadal-Ginard,B. and
            Reed,R.
  TITLE     Specific protein-protein interactions between the essential
            mammalian spliceosome-associated proteins SAP 61 and SAP 114
  JOURNAL   Proc Natl Acad Sci U S A 91 (14), 6403-6407 (1994)
   PUBMED   8022796
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BC007684.2, AC004997.2 and
            CK300534.1.
            
            On Nov 22, 2018 this sequence version replaced NM_005877.5.
            
            Summary: This gene encodes a subunit of the splicing factor 3a
            protein complex. The splicing factor 3a heterotrimer is a component
            of the mature U2 small nuclear ribonucleoprotein particle (snRNP).
            U2 small nuclear ribonucleoproteins play a critical role in
            spliceosome assembly and pre-mRNA splicing. [provided by RefSeq,
            Aug 2014].
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript 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 :: SRR3476690.875500.1,
                                           SRR3476690.853979.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000215793.13/ ENSP00000215793.7
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-2900              BC007684.2         21-2920
            2901-5018           AC004997.2         49775-51892         c
            5019-5090           CK300534.1         17-88               c
FEATURES             Location/Qualifiers
     source          1..5090
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="22"
                     /map="22q12.2"
     gene            1..5090
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /note="splicing factor 3a subunit 1"
                     /db_xref="GeneID:10291"
                     /db_xref="HGNC:HGNC:10765"
                     /db_xref="MIM:605595"
     exon            1..165
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /inference="alignment:Splign:2.1.0"
     CDS             103..2484
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /note="pre-mRNA splicing factor SF3a (120 kDa subunit);
                     pre-mRNA processing 21; splicing factor 3 subunit 1; SAP
                     114; spliceosome-associated protein 114; splicing factor
                     3a, subunit 1, 120kDa"
                     /codon_start=1
                     /product="splicing factor 3A subunit 1"
                     /protein_id="NP_005868.1"
                     /db_xref="CCDS:CCDS13875.1"
                     /db_xref="GeneID:10291"
                     /db_xref="HGNC:HGNC:10765"
                     /db_xref="MIM:605595"
                     /translation="MPAGPVQAVPPPPPVPTEPKQPTEEEASSKEDSAPSKPVVGIIY
                     PPPEVRNIVDKTASFVARNGPEFEARIRQNEINNPKFNFLNPNDPYHAYYRHKVSEFK
                     EGKAQEPSAAIPKVMQQQQQTTQQQLPQKVQAQVIQETIVPKEPPPEFEFIADPPSIS
                     AFDLDVVKLTAQFVARNGRQFLTQLMQKEQRNYQFDFLRPQHSLFNYFTKLVEQYTKI
                     LIPPKGLFSKLKKEAENPREVLDQVCYRVEWAKFQERERKKEEEEKEKERVAYAQIDW
                     HDFVVVETVDFQPNEQGNFPPPTTPEELGARILIQERYEKFGESEEVEMEVESDEEDD
                     KQEKAEEPPSQLDQDTQVQDMDEGSDDEEEGQKVPPPPETPMPPPLPPTPDQVIVRKD
                     YDPKASKPLPPAPAPDEYLVSPITGEKIPASKMQEHMRIGLLDPRWLEQRDRSIREKQ
                     SDDEVYAPGLDIESSLKQLAERRTDIFGVEETAIGKKIGEEEIQKPEEKVTWDGHSGS
                     MARTQQAAQANITLQEQIEAIHKAKGLVPEDDTKEKIGPSKPNEIPQQPPPPSSATNI
                     PSSAPPITSVPRPPTMPPPVRTTVVSAVPVMPRPPMASVVRLPPGSVIAPMPPIIHAP
                     RINVVPMPPSAPPIMAPRPPPMIVPTAFVPAPPVAPVPAPAPMPPVHPPPPMEDEPTS
                     KKLKTEDSLMPEEEFLRRNKGPVSIKVQVPNMQDKTEWKLNGQVLVFTLPLTDQVSVI
                     KVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMANGAVIHLALKERGGRKK"
     exon            166..287
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /inference="alignment:Splign:2.1.0"
     exon            288..495
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /inference="alignment:Splign:2.1.0"
     exon            496..753
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /inference="alignment:Splign:2.1.0"
     exon            754..828
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /inference="alignment:Splign:2.1.0"
     exon            829..979
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /inference="alignment:Splign:2.1.0"
     exon            980..1173
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /inference="alignment:Splign:2.1.0"
     exon            1174..1291
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /inference="alignment:Splign:2.1.0"
     exon            1292..1477
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /inference="alignment:Splign:2.1.0"
     exon            1478..1599
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /inference="alignment:Splign:2.1.0"
     exon            1600..1845
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /inference="alignment:Splign:2.1.0"
     exon            1846..2053
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /inference="alignment:Splign:2.1.0"
     exon            2054..2208
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /inference="alignment:Splign:2.1.0"
     exon            2209..2310
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /inference="alignment:Splign:2.1.0"
     exon            2311..2382
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /inference="alignment:Splign:2.1.0"
     exon            2383..5090
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2874..2879
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /note="hexamer: AATAAA"
     polyA_site      2909
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /note="major polyA site"
     regulatory      3351..3356
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /note="hexamer: AATAAT"
     polyA_site      3366
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
     regulatory      5065..5070
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
                     /note="hexamer: AATAAA"
     polyA_site      5090
                     /gene="SF3A1"
                     /gene_synonym="PRP21; PRPF21; SAP114; SF3A120"
ORIGIN      
        1 gccatcttgc gagctcgtcg tactgaccga gcggggaggc tgtcttgagg cggcaccgct
       61 caccgacacc gaggcggact ggcagccctg agcgtcgcag tcatgccggc cggacccgtg
      121 caggcggtgc ccccgccgcc gcccgtgccc acggagccca aacagcccac agaagaagaa
      181 gcatcttcaa aggaggattc tgcaccttct aagccagttg tggggattat ttaccctcct
      241 ccagaggtca gaaatattgt tgacaagact gccagctttg tggccagaaa cgggcctgaa
      301 tttgaagcta ggatccgaca gaacgagatc aacaacccca agttcaactt tctgaacccc
      361 aatgaccctt accatgccta ctaccgccac aaggtcagcg agttcaagga agggaaggct
      421 caggagccgt ccgccgccat ccccaaggtc atgcagcagc agcagcagac cacccagcag
      481 cagctgcccc agaaggtcca agcccaagta atccaagaga ccatcgtgcc caaagagcct
      541 cctcctgagt ttgagttcat tgctgatcct ccctctatct cagccttcga cttggatgtg
      601 gtgaagctga cggctcagtt tgtggccagg aatgggcgcc agtttctgac ccagctgatg
      661 cagaaagagc agcgcaacta ccagtttgac tttctccgcc cacagcacag cctcttcaac
      721 tacttcacga agctagtgga acagtacacc aagatcttga ttccacccaa aggtttattt
      781 tcaaagctca agaaagaggc tgaaaacccc cgagaagttt tggatcaggt gtgttaccga
      841 gtggaatggg ccaaattcca ggaacgtgag aggaagaagg aagaagagga gaaggagaag
      901 gagcgggtgg cctatgctca gatcgactgg catgattttg tggtggtgga aacagtggac
      961 ttccaaccca atgagcaagg gaacttccct ccccccacca cgccagagga gctgggggcc
     1021 cgaatcctca ttcaggagcg ctatgaaaag tttggggaga gtgaggaagt tgagatggag
     1081 gtcgagtctg atgaggagga tgacaaacag gagaaggcgg aggagcctcc ttcccagctg
     1141 gaccaggaca cccaagtaca agatatggat gagggttcag atgatgaaga agaagggcag
     1201 aaagtgcccc cacccccaga gacacccatg cctccacctc tgcccccaac tccagaccaa
     1261 gtcattgtcc gcaaggatta tgatcccaaa gcctccaagc ccttgcctcc agcccctgct
     1321 ccagatgagt atcttgtgtc ccccattact ggggagaaga tccccgccag caaaatgcag
     1381 gaacacatgc gcattggact tcttgaccct cgctggctgg agcagcggga tcgctccatc
     1441 cgtgagaagc agagcgatga tgaggtgtac gcaccaggtc tggatattga gagcagcttg
     1501 aagcagttgg ctgagcggcg tactgacatc ttcggtgtag aggaaacagc cattggtaag
     1561 aagatcggtg aggaggagat ccagaagcca gaggaaaagg tgacctggga tggccactca
     1621 ggcagcatgg cccggaccca gcaggctgcc caggccaaca tcaccctcca ggagcagatt
     1681 gaggccattc acaaggccaa aggcctggtg ccagaggatg acactaaaga gaagattggc
     1741 cccagcaagc ccaatgaaat ccctcaacag ccaccgccac catcttcagc caccaacatc
     1801 cccagctcgg ctccacccat cacttcagtg ccccgaccac ccacaatgcc acctccagtt
     1861 cgtactacag ttgtctccgc agtacccgtc atgccccggc ccccaatggc atctgtggtc
     1921 cggctgcccc caggctcagt gatcgccccc atgccgccca tcatccacgc gcccagaatc
     1981 aacgtggtgc ccatgcctcc ctcggcccct cctattatgg ccccccgccc accccccatg
     2041 attgtgccaa cagcctttgt gcctgctcca cctgtggcac ctgtcccagc tccagcccca
     2101 atgccccctg tgcatccccc acctcccatg gaagatgagc ccacctccaa aaaactgaag
     2161 acagaggaca gcctcatgcc agaggaggag ttcctgcgca gaaacaaggg tccagtgtcc
     2221 atcaaagtcc aggtgcccaa catgcaggat aagacggaat ggaaactgaa tgggcaggtg
     2281 ctggtcttca ccctcccact cacggaccag gtctctgtca ttaaggtgaa gattcatgaa
     2341 gccacaggca tgcctgcagg gaaacagaag ctacagtatg agggtatctt catcaaagat
     2401 tccaactcac tggcttacta caacatggcc aatggcgcag tcatccacct ggccctcaag
     2461 gagagaggcg ggaggaagaa gtagacaaga ggaacctgct gtcaagtccc tgccattttg
     2521 cctctcctgt ctcccacccc ctgccccaga cccaggagcc cccctgaggc tttgccttgc
     2581 ctgcatattt gtttcgctct tactcagttt gggaattcaa attgtcctgc agaggttcat
     2641 tcccctgacc ctttccccac attggtaaga gtagctgggt tttctaagcc actctctgga
     2701 atctctttgt gttagggtct cgatttgagg acattcattt cttcagcagc ccattagcaa
     2761 ctgagagccc agggatgtcc tacaggatag tttcatagtg acaggtggca cttggctaat
     2821 agaatatggc tgatattgtc attaatcatt ttgtaccttg acatgggttg tctaataaaa
     2881 ctcggaccct tcttgtgaaa tcagttaaat aagacttgtc tcggtcacct gtgccctgtc
     2941 cagactcgag gcagtggtaa cactgcacag tgctatgtgg cttctctttg aggatttttg
     3001 ggttttgtaa ctaaattctt gctgccctca tactttttat gtattagaat catattcgta
     3061 ttgccctttt aaaacattgg gatcctccaa aggcctgccc catgtattta acagtaatac
     3121 aggaagcatg gcaggcacca tgcaaaccaa ggatggatgg tgcagtccct gtgtcagtgg
     3181 gcggtggttt cctgctggcc tggaatcact catcacctga ttgattggct ctgtggtcct
     3241 gggcaggtgc ctcataggtg tgtggatatg atgacgtttc tttaaaatgt atgtatttaa
     3301 caaatactta attgtattaa ggtcatgtac caaggatttg ataaagttta aataatttac
     3361 tctctacttt tatccatttt atccatttta actcatgtaa tcctcatgtg agtattcctg
     3421 tttaacactt gagtaaactg aggcacagag aacataagtt gcatgccata gtcacacact
     3481 gtgaaagtga aaagagaatg tgtgcaaaac acgtcacagt cctggtttct gagtaaaggc
     3541 aggctgttat ctttagaatc aagctatcac agggagatag gcaatgctgt gggtgttgga
     3601 ggaaggtgag agcctgttgc taacaatttc ctggttttaa agctaaggct gattttattg
     3661 ggaagatctc acatgtgtgt ggcccctgag agttcccagt gccttttatt tgcagtcctt
     3721 ccatttggac ctcctagctg ccccatcagg tcatctccag ggctcagagg ggtgagacca
     3781 tttcccaagg tcacagaacc agctctctag tcaccaccct gcctctccct ctcacccaga
     3841 gtcagtacca gttttatggc tttattacaa actgctgggt ccctcccatt ttcaacttga
     3901 ttgatgggat gtcatccctt atcctgtctg acatttgcct ctggcctggt tgctagaagt
     3961 ttgccccagg ggcaagagtt gaaatttggc ttcctgaggt gggctttgtg gtttgcgtcc
     4021 ctaaagtgag cccactactg gttgcttgtc catggccaac accagaaatc ccctgagcac
     4081 tacctgggtc tcattccaag aaggaagagg gtcaggagac ctggggagtc tcatattcca
     4141 agttcttctt tctttctggg agcagtgggc agttcatggt gttagggcac tcacccccac
     4201 agactggcaa accctgcagg acttccgtgg ctgaggctgt gaccggaggc caggaatgcc
     4261 gttgggtgga ttgtgagtga atgggccctt tgagctgccc tctagagagc aaatccagtt
     4321 tcctggagct cctgaatgaa tatctgtact ggctcgctca gatgcagaag ctccattgac
     4381 catgaggcct tgtgaacatc agtggccaca ggcccagtgt gctgcttggc actgcactag
     4441 tttaggacct gcagcatgta ggtagcgtcc tagtgtttat aatacaaagc tgctctgcac
     4501 agcttttctg attcttcttg caatctcctg aggattatct gccccatttt taaaacgagg
     4561 tggaataccc aaggtcatgt agccagtgag tgctctggaa agccaaagca gctcatccct
     4621 tcctggggac cacactgctc tgctccacca gaccacacta tgaaatagga ataagtgctc
     4681 ctgttgcagg actgctggga aaacaggtgg tgtgggactt aagtcaccat aattttgaag
     4741 acttgcatgc agagggctcc aggaattgta gacattaagg aatttcactt tcagttctac
     4801 ccactactta agtacttgtc atgtactctt agaggaggcc agtaatgatc agaaccattt
     4861 tactttaaaa ttaataatat tgtattagag aatatattaa atggttatat tgggttatgt
     4921 taggatatat acttgaatgg aaatacatgt actattagca atcatatttc atttatccct
     4981 gtaattagac aagaaagcat aatatagctc tactcatggg tacacatacc agtgtataag
     5041 atttttagaa gtttactttt taaaaataaa agcaaaatgt aagatcttaa
//
