LOCUS       NM_001201338            3064 bp    mRNA    linear   PRI 03-OCT-2024
DEFINITION  Homo sapiens scaffold attachment factor B (SAFB), transcript
            variant 1, mRNA.
ACCESSION   NM_001201338
VERSION     NM_001201338.2
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 3064)
  AUTHORS   Agrawal-Singh,S., Bagri,J., Giotopoulos,G., Azazi,D.M.A.,
            Horton,S.J., Lopez,C.K., Anand,S., Bach,A.S., Stedham,F.,
            Antrobus,R., Houghton,J.W., Vassiliou,G.S., Sasca,D., Yun,H.,
            Whetton,A.D. and Huntly,B.J.P.
  TITLE     HOXA9 forms a repressive complex with nuclear matrix-associated
            protein SAFB to maintain acute myeloid leukemia
  JOURNAL   Blood 141 (14), 1737-1754 (2023)
   PUBMED   36577137
  REMARK    GeneRIF: HOXA9 forms a repressive complex with nuclear
            matrix-associated protein SAFB to maintain acute myeloid leukemia.
REFERENCE   2  (bases 1 to 3064)
  AUTHORS   Pu,Y., Han,J., Zhang,M., Liu,M., Abdusamat,G. and Liu,H.
  TITLE     SKA1 promotes tumor metastasis via SAFB-mediated transcription
            repression of DUSP6 in clear cell renal cell carcinoma
  JOURNAL   Aging (Albany NY) 14 (23), 9679-9698 (2022)
   PUBMED   36462498
  REMARK    GeneRIF: SKA1 promotes tumor metastasis via SAFB-mediated
            transcription repression of DUSP6 in clear cell renal cell
            carcinoma.
REFERENCE   3  (bases 1 to 3064)
  AUTHORS   Taze,C., Drakouli,S., Samiotaki,M., Panayotou,G., Simos,G.,
            Georgatsou,E. and Mylonis,I.
  TITLE     Short-term hypoxia triggers ROS and SAFB mediated nuclear matrix
            and mRNA splicing remodeling
  JOURNAL   Redox Biol 58, 102545 (2022)
   PUBMED   36427398
  REMARK    GeneRIF: Short-term hypoxia triggers ROS and SAFB mediated nuclear
            matrix and mRNA splicing remodeling.
REFERENCE   4  (bases 1 to 3064)
  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   5  (bases 1 to 3064)
  AUTHORS   Tanida,T., Matsuda,K.I., Uemura,T., Yamaguchi,T., Hashimoto,T.,
            Kawata,M. and Tanaka,M.
  TITLE     Subcellular dynamics of estrogen-related receptors involved in
            transrepression through interactions with scaffold attachment
            factor B1
  JOURNAL   Histochem Cell Biol 156 (3), 239-251 (2021)
   PUBMED   34129097
  REMARK    GeneRIF: Subcellular dynamics of estrogen-related receptors
            involved in transrepression through interactions with scaffold
            attachment factor B1.
REFERENCE   6  (bases 1 to 3064)
  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
REFERENCE   7  (bases 1 to 3064)
  AUTHORS   Oesterreich,S., Lee,A.V., Sullivan,T.M., Samuel,S.K., Davie,J.R.
            and Fuqua,S.A.
  TITLE     Novel nuclear matrix protein HET binds to and influences activity
            of the HSP27 promoter in human breast cancer cells
  JOURNAL   J Cell Biochem 67 (2), 275-286 (1997)
   PUBMED   9328833
REFERENCE   8  (bases 1 to 3064)
  AUTHORS   DuPont,B.R., Garcia,D.K., Sullivan,T.M., Naylor,S.L. and
            Oesterreich,S.
  TITLE     Assignment of SAFB encoding Hsp27 ERE-TATA binding protein
            (HET)/scaffold attachment factor B (SAF-B) to human chromosome 19
            band p13
  JOURNAL   Cytogenet Cell Genet 79 (3-4), 284-285 (1997)
   PUBMED   9605873
REFERENCE   9  (bases 1 to 3064)
  AUTHORS   Renz,A. and Fackelmayer,F.O.
  TITLE     Purification and molecular cloning of the scaffold attachment
            factor B (SAF-B), a novel human nuclear protein that specifically
            binds to S/MAR-DNA
  JOURNAL   Nucleic Acids Res 24 (5), 843-849 (1996)
   PUBMED   8600450
REFERENCE   10 (bases 1 to 3064)
  AUTHORS   Romig,H., Fackelmayer,F.O., Renz,A., Ramsperger,U. and Richter,A.
  TITLE     Characterization of SAF-A, a novel nuclear DNA binding protein from
            HeLa cells with high affinity for nuclear matrix/scaffold
            attachment DNA elements
  JOURNAL   EMBO J 11 (9), 3431-3440 (1992)
   PUBMED   1324173
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC004611.1, BC126219.1,
            AC011499.5 and CN271637.1.
            
            On Nov 23, 2018 this sequence version replaced NM_001201338.1.
            
            Summary: This gene encodes a DNA-binding protein which has high
            specificity for scaffold or matrix attachment region DNA elements
            (S/MAR DNA). This protein is thought to be involved in attaching
            the base of chromatin loops to the nuclear matrix but there is
            conflicting evidence as to whether this protein is a component of
            chromatin or a nuclear matrix protein. Scaffold attachment factors
            are a specific subset of nuclear matrix proteins (NMP) that
            specifically bind to S/MAR. The encoded protein is thought to serve
            as a molecular base to assemble a 'transcriptosome complex' in the
            vicinity of actively transcribed genes. It is involved in the
            regulation of heat shock protein 27 transcription, can act as an
            estrogen receptor co-repressor and is a candidate for breast
            tumorigenesis. This gene is arranged head-to-head with a similar
            gene whose product has the same functions. Multiple transcript
            variants encoding different isoforms have been found for this
            gene.[provided by RefSeq, Jan 2011].
            
            Transcript Variant: This variant (1) represents the longest
            transcript and encodes the longest protein (isoform 1).
            
            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 :: SRR1803612.174154.1,
                                           SRR3476690.877463.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000588852.2/ ENSP00000467423.1
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-81                AC004611.1         43156-43236
            82-2912             BC126219.1         1-2831
            2913-3029           AC011499.5         41704-41820
            3030-3064           CN271637.1         445-479
FEATURES             Location/Qualifiers
     source          1..3064
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="19"
                     /map="19p13.3"
     gene            1..3064
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /note="scaffold attachment factor B"
                     /db_xref="GeneID:6294"
                     /db_xref="HGNC:HGNC:10520"
                     /db_xref="MIM:602895"
     exon            1..312
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     CDS             124..2877
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /note="isoform 1 is encoded by transcript variant 1;
                     scaffold attachment factor B1; Hsp27 ERE-TATA binding
                     protein; heat-shock protein (HSP27) estrogen response
                     element and TATA box-binding protein; HSP27
                     ERE-TATA-binding protein; glutathione S-transferase fusion
                     protein; HSP27 estrogen response element-TATA box-binding
                     protein"
                     /codon_start=1
                     /product="scaffold attachment factor B1 isoform 1"
                     /protein_id="NP_001188267.1"
                     /db_xref="CCDS:CCDS59339.1"
                     /db_xref="GeneID:6294"
                     /db_xref="HGNC:HGNC:10520"
                     /db_xref="MIM:602895"
                     /translation="MAETLSGLGDSGAAGAAALSSASSETGTRRLSDLRVIDLRAELR
                     KRNVDSSGNKSVLMERLKKAIEDEGGNPDEIEITSEGNKKTSKRSSKGRKPEEEGVED
                     NGLEENSGDGQEDVETSLENLQDIDIMDISVLDEAEIDNGSVADCVEDDDADNLQESL
                     SDSRELVEGEMKELPEQLQEHAIEDKETINNLDTSSSDFTILQEIEEPSLEPENEKIL
                     DILGETCKSEPVKEESSELEQPFAQDTSSVGPDRKLAEEEDLFDSAHPEEGDLDLASE
                     STAHAQSSKADSLLAVVKREPAEQPGDGERTDCEPVGLEPAVEQSSAASELAEASSEE
                     LAEAPTEAPSPEARDSKEDGRKFDFDACNEVPPAPKESSTSEGADQKMSSPEDDSDTK
                     RLSKEEKGRSSCGRNFWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYG
                     FVTMSTAEEATKCINHLHKTELHGKMISVEKAKNEPVGKKTSDKRDSDGKKEKSSNSD
                     RSTNLKRDDKCDRKDDAKKGDDGSGEKSKDQDDQKPGPSERSRATKSGSRGTERTVVM
                     DKSKGVPVISVKTSGSKERASKSQDRKSASREKRSVVSFDKVKEPRKSRDSESHSRVR
                     ERSEREQRMQAQWEREERERLEIARERLAFQRQRLERERMERERLERERMHVEHERRR
                     EQERIHREREELRRQQELRYEQERRPAVRRPYDLDRRDDAYWPEAKRAALDERYHSDF
                     NRQDRFHDFDHRDRGRYPDHSVDRREGSRSMMGEREGQHYPERHGGPERHGRDSRDGW
                     GGYGSDKRMSEGRGLPPPPRGRRDWGDHGRREDDRSWQGTADGGMMDRDHKRWQGGER
                     SMSGHSGPGHMMNRGGMSGRGSFAPGGASRGHPIPHGGMQGGFGGQSRGSRPSDARFT
                     RRY"
     exon            313..397
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            398..462
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            463..669
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            670..732
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            733..760
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            761..1271
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            1272..1321
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            1322..1416
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            1417..1566
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            1567..1649
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            1650..1789
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            1790..1878
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            1879..1985
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            1986..2276
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            2277..2414
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            2415..2457
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            2458..2576
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            2577..2680
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            2681..2747
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     exon            2748..3064
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3034..3039
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /note="hexamer: AATAAA"
     polyA_site      3064
                     /gene="SAFB"
                     /gene_synonym="HAP; HET; SAB-B1; SAF-B; SAF-B1; SAFB1"
                     /note="major polyA site"
ORIGIN      
        1 agaagcgagg cgcgctgggg cgactggagc ggttccctcg caggcggcgc cattttgtgc
       61 taggagcctg ataaaaccgg cccggttctg tggaaagtgg gcggcggagc cagggtccct
      121 ggaatggcgg agactctgtc aggcctaggt gattctggag cggcgggcgc ggcggctctg
      181 agctccgcct cgtcagagac cgggacgcgg cgcctcagcg acctgcgagt gatcgatctg
      241 cgggcggagc tgaggaaacg gaatgtggac tcgagcggca acaagagcgt tttgatggag
      301 cggctgaaga aggcaattga agatgaaggt ggtaatcctg acgaaattga aattacctcc
      361 gagggaaaca agaaaacatc aaagaggtct agcaaagggc gcaaaccaga agaagagggt
      421 gtggaagata acgggctgga ggaaaactct ggggatggac aggaggatgt tgagaccagt
      481 ctggagaact tgcaggacat cgacatcatg gatatcagtg tgttggatga agcagaaatt
      541 gataatggaa gcgttgcaga ttgtgtcgaa gacgatgatg ctgataacct ccaggagtcc
      601 ctgtcggata gtagagagct agtcgagggg gaaatgaaag agcttccgga gcagcttcag
      661 gaacatgcta tagaggacaa agaaactata aacaatttag atacttcatc atctgacttc
      721 actatattac aggaaattga agagccatcc ctggagccag aaaatgagaa aatactcgac
      781 attttggggg aaacttgtaa atctgagcca gtaaaagaag aaagttccga gctggagcag
      841 ccatttgcac aggacacaag tagcgtgggg ccagacagaa agcttgcgga ggaagaggac
      901 ctatttgaca gcgcccatcc ggaagagggt gatttagatt tggccagcga gtcaacagca
      961 cacgctcagt cgagcaaggc agacagcctg ttagcggtag tgaaaaggga gcccgcggag
     1021 cagccaggcg atggcgagag gacggactgt gagcctgtag ggctagagcc ggcagttgag
     1081 cagagtagtg cggcctccga gctcgcggag gcctctagcg aggagctcgc agaagcaccc
     1141 acggaagccc caagcccaga agccagagat agcaaagaag acgggaggaa gtttgatttt
     1201 gacgcttgta atgaagtccc tccggctcct aaagagtcct caaccagtga gggcgctgat
     1261 cagaaaatga gttctcccga agatgactcg gatacaaaaa ggctttccaa agaggaaaag
     1321 ggtcgcagca gttgtggtag aaatttctgg gttagtggac tctcttctac aaccagagct
     1381 acagatttga agaatctttt cagcaaatat gggaaggtgg tgggcgccaa ggttgtgaca
     1441 aatgcccgga gtcctggagc tcgctgttac ggttttgtca cgatgtccac agcagaagag
     1501 gccacaaaat gcattaacca cctgcacaag acggagctcc acggaaagat gatctccgtg
     1561 gagaaagcca aaaatgaacc tgtgggaaag aaaacctctg acaaaagaga cagtgacggg
     1621 aaaaaggaga agtcgagcaa cagtgacaga tctacaaacc ttaagaggga tgataaatgt
     1681 gacagaaaag atgatgctaa gaagggtgac gacggaagtg gagaaaagag taaggaccaa
     1741 gatgatcaga aacctggccc ctcagagcga tctcgagcca caaagtcagg aagtcgaggg
     1801 accgaacgga ctgtagtaat ggataaatcc aaaggggtgc ctgtgattag tgtaaaaacg
     1861 tccgggtcca aagagagagc ttccaaaagc caggatcgca aatcagccag cagagagaag
     1921 cggtccgtcg tgtcctttga taaggtcaag gagcctcgga agtcaagaga ctcagagtcc
     1981 catagcaggg tgcgtgaacg cagtgaacgc gaacaacgca tgcaggcgca gtgggagcgc
     2041 gaggagcgtg agcggctgga gattgcccga gagaggctgg ccttccagcg ccagcggctg
     2101 gagcgggagc gcatggagcg ggaacggctg gagcgcgaac gcatgcacgt ggagcacgag
     2161 cgcaggcgcg agcaggagcg catccaccgt gagcgcgagg agctgaggcg ccagcaggaa
     2221 ctgcgctatg agcaggagcg gcggcccgcg gtgcggcggc cctacgacct ggaccggcga
     2281 gatgatgcct attggccgga agccaagcgg gccgccctgg atgagcgcta ccattctgac
     2341 tttaaccgcc aggaccgctt ccacgacttt gaccacaggg accgcggccg ctaccccgac
     2401 cactcggtgg acaggagaga aggttcaagg tcaatgatgg gagaacgaga aggacagcat
     2461 tacccagaac gccatggagg accagagcgc cacggccggg actcccgcga tggctggggg
     2521 ggctatggct ctgacaagag gatgagcgag ggccgggggc tgcctcctcc ccccaggggc
     2581 agacgtgact ggggggacca tggccgaaga gaggatgacc ggtcatggca gggcacggcc
     2641 gacgggggca tgatggacag ggatcacaag aggtggcaag gtggcgagag aagcatgtcc
     2701 ggtcactccg ggcctggcca catgatgaac cgaggaggaa tgtcagggcg cggcagcttt
     2761 gccccaggcg gggcctcccg gggccacccc atcccacacg gtggcatgca gggcgggttt
     2821 ggaggccaga gccgggggag caggcccagc gatgcccgct tcactcgccg ctactgagta
     2881 cttggaatcc tgtgtcctgt ctcgtggcaa caaggctatg ttctgttagg agttacctta
     2941 aactgtgtaa aaatattttt ttttaatctg ctgccatatt gtagctcaat acaatgtgaa
     3001 tttgtttttc gttttggggt tttttttttt tgtaataaat gtgtttccgt tcacataccc
     3061 ttta
//
