LOCUS       NM_001163300            3183 bp    mRNA    linear   ROD 06-OCT-2024
DEFINITION  Mus musculus scaffold attachment factor B (Safb), transcript
            variant 2, mRNA.
ACCESSION   NM_001163300 XM_001480312 XM_924956
VERSION     NM_001163300.1
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 3183)
  AUTHORS   Forcella,P., Ifflander,N., Rolando,C., Balta,E.A., Lampada,A.,
            Giachino,C., Mukhtar,T., Bock,T. and Taylor,V.
  TITLE     SAFB regulates hippocampal stem cell fate by targeting Drosha to
            destabilize Nfib mRNA
  JOURNAL   Elife 13, e74940 (2024)
   PUBMED   38722021
  REMARK    GeneRIF: SAFB regulates hippocampal stem cell fate by targeting
            Drosha to destabilize Nfib mRNA.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3183)
  AUTHORS   Cherney,R.E., Eberhard,Q.E., Giri,G., Mills,C.A., Porrello,A.,
            Zhang,Z., White,D., Trotman,J.B., Herring,L.E., Dominguez,D. and
            Calabrese,J.M.
  TITLE     SAFB associates with nascent RNAs and can promote gene expression
            in mouse embryonic stem cells
  JOURNAL   RNA 29 (10), 1535-1556 (2023)
   PUBMED   37468167
  REMARK    GeneRIF: SAFB associates with nascent RNAs and can promote gene
            expression in mouse embryonic stem cells.
REFERENCE   3  (bases 1 to 3183)
  AUTHORS   Schilders,K., Eenjes,E., Edel,G., de Munck,A.B., van Kempen,M.B.,
            Demmers,J., Wijnen,R., Tibboel,D. and Rottier,R.J.
  TITLE     Generation of a biotinylatable Sox2 mouse model to identify Sox2
            complexes in vivo
  JOURNAL   Transgenic Res 27 (1), 75-85 (2018)
   PUBMED   29383478
REFERENCE   4  (bases 1 to 3183)
  AUTHORS   Herriges,M.J., Tischfield,D.J., Cui,Z., Morley,M.P., Han,Y.,
            Babu,A., Li,S., Lu,M., Cendan,I., Garcia,B.A., Anderson,S.A. and
            Morrisey,E.E.
  TITLE     The NANCI-Nkx2.1 gene duplex buffers Nkx2.1 expression to maintain
            lung development and homeostasis
  JOURNAL   Genes Dev 31 (9), 889-903 (2017)
   PUBMED   28546511
REFERENCE   5  (bases 1 to 3183)
  AUTHORS   Jiang,S., Katz,T.A., Garee,J.P., DeMayo,F.J., Lee,A.V. and
            Oesterreich,S.
  TITLE     Scaffold attachment factor B2 (SAFB2)-null mice reveal
            non-redundant functions of SAFB2 compared with its paralog, SAFB1
  JOURNAL   Dis Model Mech 8 (9), 1121-1127 (2015)
   PUBMED   26092125
  REMARK    GeneRIF: despite a high degree of sequence similarity, SAFB1(-/-)
            and SAFB2(-/-) mice do not totally phenocopy each other
REFERENCE   6  (bases 1 to 3183)
  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   7  (bases 1 to 3183)
  AUTHORS   Ivanova,M., Dobrzycka,K.M., Jiang,S., Michaelis,K., Meyer,R.,
            Kang,K., Adkins,B., Barski,O.A., Zubairy,S., Divisova,J., Lee,A.V.
            and Oesterreich,S.
  TITLE     Scaffold attachment factor B1 functions in development, growth, and
            reproduction
  JOURNAL   Mol Cell Biol 25 (8), 2995-3006 (2005)
   PUBMED   15798188
  REMARK    GeneRIF: SAFB1 plays a critical role in development, growth
            regulation, and reproduction.
REFERENCE   8  (bases 1 to 3183)
  AUTHORS   Cobellis,G., Nicolaus,G., Iovino,M., Romito,A., Marra,E.,
            Barbarisi,M., Sardiello,M., Di Giorgio,F.P., Iovino,N., Zollo,M.,
            Ballabio,A. and Cortese,R.
  TITLE     Tagging genes with cassette-exchange sites
  JOURNAL   Nucleic Acids Res 33 (4), e44 (2005)
   PUBMED   15741177
  REMARK    Publication Status: Online-Only
REFERENCE   9  (bases 1 to 3183)
  AUTHORS   Townson,S.M., Kang,K., Lee,A.V. and Oesterreich,S.
  TITLE     Structure-function analysis of the estrogen receptor alpha
            corepressor scaffold attachment factor-B1: identification of a
            potent transcriptional repression domain
  JOURNAL   J Biol Chem 279 (25), 26074-26081 (2004)
   PUBMED   15066997
  REMARK    GeneRIF: SAFB1 represses ERalpha activity via indirect association
            with histone deacetylation and interaction with the basal
            transcription machinery
REFERENCE   10 (bases 1 to 3183)
  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
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CT485788.18.
            
            On or before Jul 17, 2009 this sequence version replaced
            XM_924956.2, XM_001480312.1.
            
            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 :: SRR7652917.895312.1,
                                           SRR9219382.75894.1 [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, expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-369               CT485788.18        79006-79374
            370-454             CT485788.18        82806-82890
            455-519             CT485788.18        87714-87778
            520-726             CT485788.18        87859-88065
            727-789             CT485788.18        89676-89738
            790-817             CT485788.18        91812-91839
            818-1394            CT485788.18        92668-93244
            1395-1444           CT485788.18        93647-93696
            1445-1539           CT485788.18        94362-94456
            1540-1689           CT485788.18        94846-94995
            1690-1772           CT485788.18        95072-95154
            1773-1912           CT485788.18        95251-95390
            1913-2001           CT485788.18        95467-95555
            2002-2108           CT485788.18        96901-97007
            2109-2399           CT485788.18        97556-97846
            2400-2537           CT485788.18        98170-98307
            2538-2580           CT485788.18        98390-98432
            2581-2696           CT485788.18        99308-99423
            2697-2797           CT485788.18        99581-99681
            2798-2864           CT485788.18        99821-99887
            2865-3183           CT485788.18        100000-100318
FEATURES             Location/Qualifiers
     source          1..3183
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="17"
                     /map="17 29.4 cM"
     gene            1..3183
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /note="scaffold attachment factor B"
                     /db_xref="GeneID:224903"
                     /db_xref="MGI:MGI:2146974"
     exon            1..369
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     CDS             181..2994
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /note="isoform 2 is encoded by transcript variant 2;
                     scaffold attachment factor B1"
                     /codon_start=1
                     /product="scaffold attachment factor B1 isoform 2"
                     /protein_id="NP_001156772.1"
                     /db_xref="CCDS:CCDS50152.1"
                     /db_xref="GeneID:224903"
                     /db_xref="MGI:MGI:2146974"
                     /translation="MAETLSGLGDASAAGAAAVSSAASETGTRRLSDLRVIDLRAELK
                     KRNLDSSGNKSVLMERLKKAIEDEGGNPDEIEVTSECNKKMPKRPSKGRKPEDEGVED
                     NGLEENSGDGQEDVETSLENLQDMDMMDISVLDEADIDNGSVADCVEEEEEATLPEGL
                     ADSTELVEGDLKGLPEQLQEHAIDDKDTVNNVDTSSSDFTMLQEMEEASLEPENEKIL
                     DILGETCKSEPVKEEGSELEQPFAQATSSVGPDRKLAEEEDLFESCGHPEEEEEEEEE
                     DQEEEQEEEGDLALASSSKSESPSTRCQWSEADAPLAVVKREPADAPGGGTGMDREPV
                     GLEEPVEQSSTAAQLPEATSQELVRAPTAALSPEPQDSKEDVKKFAFDACNDVPAPPK
                     ESSASEGADQKMSSVEEDSDTKRLSREEKGRSSCGRNFWVSGLSSTTRATDLKNLFSR
                     YGKVVGAKVVTNARSPGARCYGFVTMSTAEEATKCISHLHKTELHGKMISVEKAKSEP
                     TGKRVPDRRDGDSKKEKASTSDRSANLKREEKGERKDDAKKTDDGSTEKSKDADDQKP
                     GPSERSRTTKSGSRGTERTVVMDKSKGVPVISVKTSGSKERASKSQDRKSASREKRSV
                     VSFDKVKESRKSRDSESRRERERSEREQRLQAQWEREERERLEIARERLAFHRHRLER
                     ERMERERLERERMHVEQERRREQERIHREREELRRQQELRYEQERRPAVRRPYEVDGR
                     RDDAYWPEAKRAALDDRYHSDFSRQDRFHDFDHRDRGRYPNHSVDRREGSRSMMGDRE
                     GQHYPERHGGPERHGRDSRDGWGYGSNKRLSEGRGLPPPPRRDWGEHGRRLEDDRAWQ
                     GTADGGMMERDHKRWQGGERSMSGHSGPGHMMNRGGMSGRGSFAPGGASRGHVIPRGG
                     MQAGFGGQSRGSRPSDARFTRRY"
     exon            370..454
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            455..519
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            520..726
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            727..789
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            790..817
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            818..1394
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            1395..1444
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            1445..1539
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            1540..1689
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            1690..1772
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            1773..1912
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            1913..2001
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            2002..2108
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            2109..2399
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            2400..2537
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            2538..2580
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            2581..2696
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            2697..2797
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            2798..2864
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            2865..3183
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3153..3158
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /note="hexamer: AATAAA"
     polyA_site      3183
                     /gene="Safb"
                     /gene_synonym="3110021E02Rik; 5330423C17Rik; E130307D12;
                     HAP; HET; SAF-B1; SAFB1"
                     /note="major polyA site"
ORIGIN      
        1 agtgtcgagg tgcgcctccg gggaggctga agcggttccc tctcaggcgg cgccattttg
       61 tggtaagagg gccgagattc aaaaaaataa taataataac aaatcaaaaa aaaaacacac
      121 tcacgcaaac ccactgaccc ggttctgtgt gaagtgggcg acggaaccag ggtccctgga
      181 atggcggaga ctctgtcggg tttaggagac gcgagtgcgg cgggcgcggc ggccgtgagc
      241 tccgcggcgt cagagaccgg gacgcggcgg ctcagcgacc tgcgggtgat cgacctgcgg
      301 gcggagctga agaagcggaa cctcgactcg agcggcaaca agagcgtgct gatggagcgg
      361 ctgaagaagg ccattgaaga tgaaggtggg aatcctgatg aaattgaagt cacctcagaa
      421 tgcaacaaga agatgcctaa gaggcccagc aaagggagga aaccagaaga cgagggtgtg
      481 gaggacaacg ggctcgagga gaattctggg gatgggcagg aggatgtgga gaccagcctg
      541 gagaacctgc aagacatgga tatgatggac atcagtgtgc tggatgaggc tgacattgac
      601 aatggcagcg tggcagactg tgtggaggaa gaggaggagg ccacactccc tgagggccta
      661 gcagacagca ctgaactggt agaaggagat ttgaaagggc tcccagaaca gctgcaggag
      721 catgctatag atgacaagga caccgttaac aatgtagata cgtcatcatc tgacttcacc
      781 atgctgcagg agatggaaga ggcatctttg gagccagaaa atgagaaaat actcgacatt
      841 ttgggggaaa cttgtaaatc tgagccagta aaagaagaag gttcggagct ggagcagccc
      901 tttgcccagg ccacgagtag cgtggggcca gacaggaagc tggcggagga agaggaccta
      961 tttgagagct gcggccaccc ggaagaggaa gaggaagagg aggaagaaga tcaggaagag
     1021 gagcaggagg aggagggaga tttagctttg gccagcagca gcaagtctga gtctccaagc
     1081 actcggtgtc agtggagcga ggcagatgcc ccgttagcag tagtgaaaag ggagccggca
     1141 gatgcgcctg gcggaggcac tgggatggac cgcgagcctg tagggctaga ggagccagtt
     1201 gaacagagta gcacggctgc ccagctcccg gaggccacca gccaggagct ggtgcgagcg
     1261 cccacggcag ccctgagccc tgagccccaa gatagcaaag aagacgtgaa gaagtttgct
     1321 tttgacgctt gtaatgacgt ccctgcgcct cctaaagagt cctcagccag tgagggcgct
     1381 gatcagaaaa tgagttctgt ggaggaggac tcggatacaa aaaggctttc ccgagaagag
     1441 aagggtcgca gcagctgtgg taggaatttc tgggttagtg gcctttcgtc tacaaccaga
     1501 gccacggatc tgaagaacct gtttagcaga tatgggaagg tggtgggtgc taaggttgtg
     1561 acgaacgccc ggagtcctgg agctcgctgt tatggctttg tcactatgtc cacagctgaa
     1621 gaggcaacaa aatgcattag ccatttgcac aagactgagc tgcatggcaa gatgatctca
     1681 gtggaaaagg ccaaaagtga gcccactggc aaaagagtgc ctgacaggcg agatggggac
     1741 agcaagaagg agaaggccag caccagtgac agatctgcaa accttaagag ggaggagaaa
     1801 ggtgagagaa aagacgatgc caagaagaca gatgatggga gcacagagaa gagcaaagac
     1861 gcagatgacc agaaacctgg gccttcagag cgctcgcgaa cgaccaagtc aggaagccgt
     1921 ggcactgagc gcactgtggt gatggacaag tccaaaggtg tgcctgtcat cagtgtgaaa
     1981 acatctgggt ctaaagagag agcctccaaa agtcaggacc ggaagtcagc cagccgggag
     2041 aagcggtctg ttgtgtcctt tgacaaagtt aaagagtctc gaaagtccag agactcagag
     2101 tctcggaggg aacgggagcg cagtgagcgg gagcagaggc tgcaggccca gtgggagcgg
     2161 gaggagcgag agcggctgga gattgctcgt gagcgcttgg cattccaccg ccatcggcta
     2221 gagcgtgaac gcatggagcg ggagcggctg gagcgggagc ggatgcatgt agaacaggag
     2281 cggaggcgtg agcaagagcg cattcaccga gagcgagagg agcttcggcg tcagcaggag
     2341 ctgcgctatg aacaggagcg ccggcctgct gtgcgcaggc cctatgaagt ggatggccgg
     2401 cgagatgatg cctattggcc agaagctaaa cgggctgctc tggatgaccg ttaccactca
     2461 gacttcagcc gccaggaccg ctttcacgac ttcgaccaca gagacagagg ccgttatccc
     2521 aaccattctg tggataggag agaaggttca cggtcgatga tgggagacag agaaggacag
     2581 cattaccctg aacgccatgg aggacctgaa cgccatggcc gggactctcg agatggctgg
     2641 ggctatggtt cgaacaagag attgagtgaa ggccgggggc tgccccctcc tcccaggcgt
     2701 gactgggggg agcatggccg gcgacttgaa gatgaccggg catggcaggg cacggctgat
     2761 ggaggcatga tggagcgtga tcataagagg tggcaaggtg gtgagaggag catgtctggc
     2821 cactcggggc ctggtcacat gatgaaccgt ggtggcatgt cagggcgagg cagttttgcc
     2881 ccaggaggag cttctcgtgg ccatgtgatc ccacgtggag ggatgcaggc aggctttgga
     2941 ggacagagcc ggggaagcag acccagtgat gcccgcttca cccgccgcta ttgagcacct
     3001 aagccaccca accgtgacct tcaagtccta tcaggacttc cctcccacca ttgtacaaag
     3061 gaattttttt tttatctgct gccatattgt agcttgttac gatgtgaatt tgttttcatt
     3121 tttgttcgtg ttttgttttg ttttgttttt gtaataaagg tgtttctgtt taagtgccct
     3181 tta
//
