LOCUS       NM_022394               3102 bp    mRNA    linear   ROD 30-MAR-2024
DEFINITION  Rattus norvegicus scaffold attachment factor B (Safb), mRNA.
ACCESSION   NM_022394
VERSION     NM_022394.2
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 3102)
  AUTHORS   Hashimoto,T., Kawata,M., Hirahara,Y., Nishi,M., Satoshi,I. and
            Matsuda,K.I.
  TITLE     Scaffold attachment factor B: distribution and interaction with
            ERalpha in the rat brain
  JOURNAL   Histochem Cell Biol 153 (5), 323-338 (2020)
   PUBMED   32086573
  REMARK    GeneRIF: Scaffold attachment factor B: distribution and interaction
            with ERalpha in the rat brain.
REFERENCE   2  (bases 1 to 3102)
  AUTHORS   Baltz,A.G., Munschauer,M., Schwanhausser,B., Vasile,A.,
            Murakawa,Y., Schueler,M., Youngs,N., Penfold-Brown,D., Drew,K.,
            Milek,M., Wyler,E., Bonneau,R., Selbach,M., Dieterich,C. and
            Landthaler,M.
  TITLE     The mRNA-bound proteome and its global occupancy profile on
            protein-coding transcripts
  JOURNAL   Mol Cell 46 (5), 674-690 (2012)
   PUBMED   22681889
REFERENCE   3  (bases 1 to 3102)
  AUTHORS   Castello,A., Fischer,B., Eichelbaum,K., Horos,R., Beckmann,B.M.,
            Strein,C., Davey,N.E., Humphreys,D.T., Preiss,T., Steinmetz,L.M.,
            Krijgsveld,J. and Hentze,M.W.
  TITLE     Insights into RNA biology from an atlas of mammalian mRNA-binding
            proteins
  JOURNAL   Cell 149 (6), 1393-1406 (2012)
   PUBMED   22658674
REFERENCE   4  (bases 1 to 3102)
  AUTHORS   Heinrich,B., Zhang,Z., Raitskin,O., Hiller,M., Benderska,N.,
            Hartmann,A.M., Bracco,L., Elliott,D., Ben-Ari,S., Soreq,H.,
            Sperling,J., Sperling,R. and Stamm,S.
  TITLE     Heterogeneous nuclear ribonucleoprotein G regulates splice site
            selection by binding to CC(A/C)-rich regions in pre-mRNA
  JOURNAL   J Biol Chem 284 (21), 14303-14315 (2009)
   PUBMED   19282290
REFERENCE   5  (bases 1 to 3102)
  AUTHORS   Omura,Y., Nishio,Y., Takemoto,T., Ikeuchi,C., Sekine,O., Morino,K.,
            Maeno,Y., Obata,T., Ugi,S., Maegawa,H., Kimura,H. and Kashiwagi,A.
  TITLE     SAFB1, an RBMX-binding protein, is a newly identified regulator of
            hepatic SREBP-1c gene
  JOURNAL   BMB Rep 42 (4), 232-237 (2009)
   PUBMED   19403048
REFERENCE   6  (bases 1 to 3102)
  AUTHORS   Traweger,A., Fuchs,R., Krizbai,I.A., Weiger,T.M., Bauer,H.C. and
            Bauer,H.
  TITLE     The tight junction protein ZO-2 localizes to the nucleus and
            interacts with the heterogeneous nuclear ribonucleoprotein scaffold
            attachment factor-B
  JOURNAL   J Biol Chem 278 (4), 2692-2700 (2003)
   PUBMED   12403786
  REMARK    GeneRIF: nuclear tight junction protein ZO-2 directly interacts
            with the DNA-binding protein scaffold attachment factor-B
REFERENCE   7  (bases 1 to 3102)
  AUTHORS   Nikolakaki,E., Kohen,R., Hartmann,A.M., Stamm,S., Georgatsou,E. and
            Giannakouros,T.
  TITLE     Cloning and characterization of an alternatively spliced form of SR
            protein kinase 1 that interacts specifically with scaffold
            attachment factor-B
  JOURNAL   J Biol Chem 276 (43), 40175-40182 (2001)
   PUBMED   11509566
REFERENCE   8  (bases 1 to 3102)
  AUTHORS   Stoss,O., Olbrich,M., Hartmann,A.M., Konig,H., Memmott,J.,
            Andreadis,A. and Stamm,S.
  TITLE     The STAR/GSG family protein rSLM-2 regulates the selection of
            alternative splice sites
  JOURNAL   J Biol Chem 276 (12), 8665-8673 (2001)
   PUBMED   11118435
REFERENCE   9  (bases 1 to 3102)
  AUTHORS   Hartmann,A.M., Nayler,O., Schwaiger,F.W., Obermeier,A. and Stamm,S.
  TITLE     The interaction and colocalization of Sam68 with the
            splicing-associated factor YT521-B in nuclear dots is regulated by
            the Src family kinase p59(fyn)
  JOURNAL   Mol Biol Cell 10 (11), 3909-3926 (1999)
   PUBMED   10564280
REFERENCE   10 (bases 1 to 3102)
  AUTHORS   Nayler,O., Stratling,W., Bourquin,J.P., Stagljar,I., Lindemann,L.,
            Jasper,H., Hartmann,A.M., Fackelmayer,F.O., Ullrich,A. and Stamm,S.
  TITLE     SAF-B protein couples transcription and pre-mRNA splicing to
            SAR/MAR elements
  JOURNAL   Nucleic Acids Res 26 (15), 3542-3549 (1998)
   PUBMED   9671816
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000009.1.
            
            On Apr 30, 2015 this sequence version replaced NM_022394.1.
            
            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 :: AF056324.1, SRR26643293.48577.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760383, SAMEA5760386
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-283               JAXUCZ010000009.1  1504657-1504939
            284-368             JAXUCZ010000009.1  1508275-1508359
            369-433             JAXUCZ010000009.1  1513271-1513335
            434-640             JAXUCZ010000009.1  1513416-1513622
            641-703             JAXUCZ010000009.1  1515192-1515254
            704-731             JAXUCZ010000009.1  1517426-1517453
            732-1311            JAXUCZ010000009.1  1518322-1518901
            1312-1361           JAXUCZ010000009.1  1519307-1519356
            1362-1456           JAXUCZ010000009.1  1519990-1520084
            1457-1606           JAXUCZ010000009.1  1520495-1520644
            1607-1689           JAXUCZ010000009.1  1520720-1520802
            1690-1829           JAXUCZ010000009.1  1520932-1521071
            1830-1918           JAXUCZ010000009.1  1521148-1521236
            1919-2025           JAXUCZ010000009.1  1522125-1522231
            2026-2322           JAXUCZ010000009.1  1522792-1523088
            2323-2460           JAXUCZ010000009.1  1523364-1523501
            2461-2503           JAXUCZ010000009.1  1523584-1523626
            2504-2619           JAXUCZ010000009.1  1524566-1524681
            2620-2720           JAXUCZ010000009.1  1524821-1524921
            2721-2787           JAXUCZ010000009.1  1525062-1525128
            2788-3102           JAXUCZ010000009.1  1525231-1525545
FEATURES             Location/Qualifiers
     source          1..3102
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="9"
                     /map="9q11"
     gene            1..3102
                     /gene="Safb"
                     /note="scaffold attachment factor B"
                     /db_xref="GeneID:64196"
                     /db_xref="RGD:620613"
     exon            1..283
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     CDS             95..2917
                     /gene="Safb"
                     /note="SAF-B; SAF-B1"
                     /codon_start=1
                     /product="scaffold attachment factor B1"
                     /protein_id="NP_071789.2"
                     /db_xref="GeneID:64196"
                     /db_xref="RGD:620613"
                     /translation="MAETLSGLGDSGAASAAAVSSAASETGTRRLSDLRVIDLRAELR
                     KRNLDSSGNKSVLMERLKKAIEEEGGNPDEIEVISEGNKKMPKRPSKGKKPEDEGVED
                     NGLEENSGDGQEDVETSLENLQDMDMMDISVLDEADIDNGSVADCVEEEEEATLPEGL
                     GDSTELVEGDSKGLPEQLQEHAIDDKEAINNVDTSSSDFTILQEMEEASLEPENEKIL
                     DILGETCKSEPVKEEGSELEQPFAQATSSVGPDRKLAEEEDLFESCGHPEEEEEEEEE
                     EEQEEEQEEEGDLALASSSKSESSSTRCQWSEADALLAVVKREPAEAPGGGTGMDREP
                     VGLEEPVEQSSTAAQLPETTSQELVRAPTAAPSPEPRDSKDDVKKFAFDACNDVPAAP
                     KESSASEGADQKMSSVEDDSDTKRLSREEKGRSSCGRNFWVSGLSSTTRATDLKNLFS
                     RYGKVVGAKVVTNARSPGARCYGFVTMSTAEEATKCINHLHKTELHGKMISVEKAKSE
                     PAGKRVPDRRDGDSKKEKTSTSDRSANLKREEKGDRKDDAKKTDDGSTEKSKDADDQK
                     PGPSERSRTTKSGSRGTERTVVMDKSKGVPVISVKTSGSKERASKSQDRKSVSREKRS
                     VVSFDKVKESRKSRDSESRRERERERSEREQRLQAQWEREERERLEIARERLAFHRHR
                     LERERMERERLERERMHVEQERRREQERIHREREELRRQQELRYEQERRPAVRRPYEV
                     DGRRDDAYWPEAKRAALDDRYHSDFSRQDRFHDFDHRDRGRYPNHSVDRREGSRSMMG
                     DREGQHYPERHGGPERHGRDSRDGWGYGSNKRLSEGRGLPPPPRRDWGEHGRRLEDDR
                     AWQGTADGGMMERDHKRWQGGERSMSGHSGPGHMMNRGGMSGRGSFAPGGASRGHVIP
                     RGGMQAGFGGQSRGSRPSDARFTRRY"
     exon            284..368
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     exon            369..433
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     exon            434..640
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     exon            641..703
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     exon            704..731
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     exon            732..1311
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     exon            1312..1361
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     exon            1362..1456
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     exon            1457..1606
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     exon            1607..1689
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     exon            1690..1829
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     exon            1830..1918
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     exon            1919..2025
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     exon            2026..2322
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     exon            2323..2460
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     exon            2461..2503
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     exon            2504..2619
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     exon            2620..2720
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     exon            2721..2787
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
     exon            2788..3102
                     /gene="Safb"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 aaaaaaaaaa taataacaaa tccaaaaaac acacccacgc aagcccactg acccggttct
       61 gtgtgaagtg ggcgacggaa ccagggtccc tggaatggcg gagactctgt cgggtttagg
      121 agactcgggt gcggcaagcg cagcggccgt gagctccgcg gcgtcagaga ccgggacgcg
      181 gcggctcagc gacctgcggg tgatcgacct gcgggcggag ctgcggaagc gaaacctcga
      241 ctcgagcggc aacaagagcg tgctgatgga gcggcttaag aaggccattg aagaggaagg
      301 tgggaatcct gatgaaattg aagtcatctc agaaggcaac aagaagatgc ctaagaggcc
      361 cagcaaaggg aagaaaccag aagacgaggg tgtggaggac aacgggctcg aggagaattc
      421 tggggatggg caggaggatg tggaaaccag cctggagaac ctgcaagaca tggatatgat
      481 ggacatcagt gtgctggatg aggctgacat tgataatggc agcgtggcag actgtgtgga
      541 ggaagaagag gaggccacac tccctgaggg cctaggagac agcactgaac tggtagaagg
      601 cgactcgaag gggctcccag aacagctgca ggagcatgct atagatgaca aggaagccat
      661 taacaatgta gatacatcat catctgactt caccatcctg caggagatgg aagaggcatc
      721 tttggagcca gaaaatgaga aaatactcga cattttgggg gaaacttgta aatctgagcc
      781 agtaaaagaa gaaggttcgg agctggagca gccctttgcc caggccacga gtagcgtggg
      841 gccagacagg aagctggcgg aggaagagga cctatttgag agctgcggcc acccggaaga
      901 ggaagaagaa gaggaggaag aagaggagca ggaagaggag caggaggagg agggagattt
      961 agctttggcc agcagcagca agtctgagtc ttcaagcact cgatgtcagt ggagcgaggc
     1021 agacgccctg ttagcagtag tgaaaaggga gccggcagag gcgcctggcg gaggcactgg
     1081 gatggaccgc gagcctgtag ggctagagga gccagttgaa cagagtagca cggctgccca
     1141 gctcccggag accaccagcc aggagctggt gcgagcgccc acggcagccc cgagccctga
     1201 gccccgagat agcaaagacg acgtgaagaa gtttgctttt gacgcttgta atgacgtccc
     1261 tgcggctcct aaagagtcct cagccagtga gggcgctgat cagaaaatga gttctgtgga
     1321 agatgactcg gatacaaaaa ggctttccag agaggagaag ggtcgcagca gctgtggtag
     1381 gaatttctgg gttagtggcc tttcatctac gaccagagcc acagatctga agaacctttt
     1441 tagcagatac gggaaggtgg tgggagctaa ggttgtgacg aacgcccgga gtcccggagc
     1501 tcgctgttac ggctttgtca ctatgtccac agctgaagag gcaacaaagt gcattaacca
     1561 tttgcataag actgagctgc atggcaagat gatctcggtg gaaaaggcca aaagtgagcc
     1621 cgctggcaaa agagtacctg acaggcgaga tggcgacagc aagaaagaga agaccagcac
     1681 cagtgacaga tctgcaaacc ttaagaggga ggagaaaggt gacagaaaag acgatgccaa
     1741 gaagacggat gatgggagca cagagaagag caaggatgca gatgaccaaa agcctgggcc
     1801 ttcagagcgc tctcgaacaa ccaagtcagg aagccgtggc actgagcgta ctgtggtgat
     1861 ggacaagtcc aaaggtgtgc ctgtcatcag tgtgaagact tctggttcta aagagagagc
     1921 ctccaaaagt caggaccgaa agtctgtcag ccgggagaag cggtctgttg tgtcctttga
     1981 caaggttaaa gagtctcgaa agtccagaga ctcggagtca cggagggagc gggagcggga
     2041 gcgcagtgag cgggagcaaa ggctgcaggc ccagtgggag cgggaggagc gagagcggct
     2101 ggagattgcc cgggagcgcc tggctttcca ccgacatagg ctggagcgtg aacgcatgga
     2161 gagggaacgg ttggagcggg agcgcatgca tgtggaacag gagcggaggc gtgagcaaga
     2221 gcgcattcac cgagagcgag aggagcttcg gcgtcagcag gaactgcgct atgaacagga
     2281 gcggaggcct gctgtgcgca ggccctatga agtagatggc cggcgagatg atgcctattg
     2341 gccagaagct aaacgggctg cgctggatga ccgttaccac tcagacttca gtcgccagga
     2401 ccgctttcat gacttcgacc acagagacag aggccgctat cccaaccact ctgtggatag
     2461 gagagaaggt tcacggtcga tgatgggaga cagagaagga cagcattacc ctgagcgcca
     2521 tggaggacct gaacgccatg gccgggactc tcgagatggc tggggctatg gctcaaacaa
     2581 gagactgagt gaaggccggg ggctgccccc tcctcccagg cgtgactggg gagagcatgg
     2641 ccggagactt gaagatgacc gggcatggca gggcacagct gatggaggca tgatggagcg
     2701 tgatcacaag agatggcaag gtggtgagag gagcatgtct ggccactcag ggcccggtca
     2761 catgatgaat cgtggtggca tgtcagggcg aggcagtttt gcccccggag gagcttcccg
     2821 tggccatgtg atcccacgtg gagggatgca ggcaggcttc ggcggacaga gccggggcag
     2881 cagacccagt gatgcccgct tcacccgccg ctattgagca cctaaaccac ccaaccatga
     2941 cctccaagtc ctcttaggac taccctcccg ccattgtaca aaggattttt ttttttttat
     3001 ctgctgccat attgtagctt gttacgatgt gaatttgttt tcatttttgt tcctgttttt
     3061 ttgtaataaa ggtgtttctg ttcatgtgcc ctttacttca aa
//
