LOCUS       NM_013676               3549 bp    mRNA    linear   ROD 08-AUG-2024
DEFINITION  Mus musculus suppressor of Ty 5, DSIF elongation factor subunit
            (Supt5), transcript variant 1, mRNA.
ACCESSION   NM_013676
VERSION     NM_013676.2
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 3549)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   2  (bases 1 to 3549)
  AUTHORS   Abe,K., Schauer,T. and Torres-Padilla,M.E.
  TITLE     Distinct patterns of RNA polymerase II and transcriptional
            elongation characterize mammalian genome activation
  JOURNAL   Cell Rep 41 (13), 111865 (2022)
   PUBMED   36577375
REFERENCE   3  (bases 1 to 3549)
  AUTHORS   Hu,S., Peng,L., Xu,C., Wang,Z., Song,A. and Chen,F.X.
  TITLE     SPT5 stabilizes RNA polymerase II, orchestrates transcription
            cycles, and maintains the enhancer landscape
  JOURNAL   Mol Cell 81 (21), 4425-4439 (2021)
   PUBMED   34534457
  REMARK    GeneRIF: SPT5 stabilizes RNA polymerase II, orchestrates
            transcription cycles, and maintains the enhancer landscape.
REFERENCE   4  (bases 1 to 3549)
  AUTHORS   Fitz,J., Neumann,T., Steininger,M., Wiedemann,E.M., Garcia,A.C.,
            Athanasiadis,A., Schoeberl,U.E. and Pavri,R.
  TITLE     Spt5-mediated enhancer transcription directly couples enhancer
            activation with physical promoter interaction
  JOURNAL   Nat Genet 52 (5), 505-515 (2020)
   PUBMED   32251373
REFERENCE   5  (bases 1 to 3549)
  AUTHORS   Ingham,N.J., Pearson,S.A., Vancollie,V.E., Rook,V., Lewis,M.A.,
            Chen,J., Buniello,A., Martelletti,E., Preite,L., Lam,C.C.,
            Weiss,F.D., Powis,Z., Suwannarat,P., Lelliott,C.J., Dawson,S.J.,
            White,J.K. and Steel,K.P.
  TITLE     Mouse screen reveals multiple new genes underlying mouse and human
            hearing loss
  JOURNAL   PLoS Biol 17 (4), e3000194 (2019)
   PUBMED   30973865
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 3549)
  AUTHORS   Patel,S.A. and Simon,M.C.
  TITLE     Functional analysis of the Cdk7.cyclin H.Mat1 complex in mouse
            embryonic stem cells and embryos
  JOURNAL   J Biol Chem 285 (20), 15587-15598 (2010)
   PUBMED   20231280
REFERENCE   7  (bases 1 to 3549)
  AUTHORS   Yokoyama,S., Ito,Y., Ueno-Kudoh,H., Shimizu,H., Uchibe,K.,
            Albini,S., Mitsuoka,K., Miyaki,S., Kiso,M., Nagai,A., Hikata,T.,
            Osada,T., Fukuda,N., Yamashita,S., Harada,D., Mezzano,V., Kasai,M.,
            Puri,P.L., Hayashizaki,Y., Okado,H., Hashimoto,M. and Asahara,H.
  TITLE     A systems approach reveals that the myogenesis genome network is
            regulated by the transcriptional repressor RP58
  JOURNAL   Dev Cell 17 (6), 836-848 (2009)
   PUBMED   20059953
REFERENCE   8  (bases 1 to 3549)
  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
REFERENCE   9  (bases 1 to 3549)
  AUTHORS   Kusumi,K., Sun,E.S., Kerrebrock,A.W., Bronson,R.T., Chi,D.C.,
            Bulotsky,M.S., Spencer,J.B., Birren,B.W., Frankel,W.N. and
            Lander,E.S.
  TITLE     The mouse pudgy mutation disrupts Delta homologue Dll3 and
            initiation of early somite boundaries
  JOURNAL   Nat Genet 19 (3), 274-278 (1998)
   PUBMED   9662403
REFERENCE   10 (bases 1 to 3549)
  AUTHORS   Chiang,P.W., Stubbs,L., Zhang,L. and Kurnit,D.M.
  TITLE     Isolation of murine SPT5 homologue: completion of the isolation and
            characterization of human and murine homologues of yeast chromatin
            structural protein complex SPT4, SPT5, and SPT6
  JOURNAL   Genomics 47 (3), 426-428 (1998)
   PUBMED   9480761
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC148986.5.
            
            On Mar 2, 2023 this sequence version replaced NM_013676.1.
            
            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 :: BC057449.1, AK145117.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164140, SAMN01164141
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-61                AC148986.5         232001-232061       c
            62-145              AC148986.5         231658-231741       c
            146-305             AC148986.5         224676-224835       c
            306-371             AC148986.5         223886-223951       c
            372-383             AC148986.5         223324-223335       c
            384-453             AC148986.5         222889-222958       c
            454-522             AC148986.5         222722-222790       c
            523-588             AC148986.5         222565-222630       c
            589-619             AC148986.5         222326-222356       c
            620-688             AC148986.5         222009-222077       c
            689-940             AC148986.5         219256-219507       c
            941-1030            AC148986.5         217199-217288       c
            1031-1101           AC148986.5         217032-217102       c
            1102-1207           AC148986.5         215770-215875       c
            1208-1301           AC148986.5         215526-215619       c
            1302-1438           AC148986.5         215309-215445       c
            1439-1594           AC148986.5         213526-213681       c
            1595-1741           AC148986.5         213273-213419       c
            1742-1888           AC148986.5         212261-212407       c
            1889-2014           AC148986.5         212045-212170       c
            2015-2099           AC148986.5         211043-211127       c
            2100-2207           AC148986.5         210699-210806       c
            2208-2310           AC148986.5         210522-210624       c
            2311-2438           AC148986.5         210292-210419       c
            2439-2544           AC148986.5         210090-210195       c
            2545-2703           AC148986.5         209589-209747       c
            2704-2872           AC148986.5         209315-209483       c
            2873-3076           AC148986.5         209029-209232       c
            3077-3172           AC148986.5         208655-208750       c
            3173-3549           AC148986.5         208200-208576       c
FEATURES             Location/Qualifiers
     source          1..3549
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="7"
                     /map="7 16.68 cM"
     gene            1..3549
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /note="suppressor of Ty 5, DSIF elongation factor subunit"
                     /db_xref="GeneID:20924"
                     /db_xref="MGI:MGI:1202400"
     exon            1..61
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            62..145
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     CDS             71..3319
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /note="isoform a is encoded by transcript variant 1;
                     transcription elongation factor SPT5; DSIF large subunit;
                     DRB sensitivity-inducing factor large subunit; suppressor
                     of Ty 5 homolog"
                     /codon_start=1
                     /product="transcription elongation factor SPT5 isoform a"
                     /protein_id="NP_038704.1"
                     /db_xref="CCDS:CCDS39857.1"
                     /db_xref="GeneID:20924"
                     /db_xref="MGI:MGI:1202400"
                     /translation="MSDSEDSNFSEEEDSERSSEAEEAEVEEDQRSAAGSEKEEEPEE
                     EEEEEEEYDEEEEEEDDDRPPKKPRHGGFILDEADVDDEYEDEDQWEDGAEDILEKEE
                     IEASNIDNVVLDEDRSGARRLQNLWRDQREEELGEYYMKKYAKSSVGETVYGGSDELS
                     DDITQQQLLPGVKDPNLWTVKCKIGEERATAISLMRKFIAYQFTDTPLQIKSVVAPEH
                     VKGYIYVEAYKQTHVKQAIEGVGNLRLGYWNQQMVPIKEMTDVLKVVKEVANLKPKSW
                     VRLKRGIYKDDIAQVDYVEPSQNTISLKMIPRIDYDRIKARMSLKDWFAKRKKFKRPP
                     QRLFDAEKIRSLGGDVASDGDFLIFEGNRYSRKGFLFKSFAMSAVITEGVKPTLSELE
                     KFEDQPEGIDLEVVTESTGKEREHNFQPGDNVEVCEGELINLQGKVLSVDGNKITIMP
                     KHEDLKDMLEFPAQELRKYFKMGDHVKVIAGRFEGDTGLIVRVEENFVILFSDLTMHE
                     LKVLPRDLQLCSETASGVDVGGQHEWGELVQLDPRTVGVIVRLERETFQVLNMHGKVV
                     TVRHQAVTQKKDNRFAVALDSDQNNIHVKDIVKVIDGPHSGREGEIRHLYRSFAFLHC
                     KKLVENGGMFVCKARHLVLAGGSKPRDVTNLTVGGFTPMSPRISSPMHPSAEGQHGGF
                     GSPGGMSRGRGRRDNELIGQTVRISQGPYKGYIGVVKDATESTARVELHSTCQTISVD
                     RQRLTTVDSQRPGGMTSTYGRTPMYGSQTPMYGSGSRTPMYGSQTPLQDGSRTPHYGS
                     QTPLHDGSRTPAQSGAWDPNNPNTPSRAEEEYEYAFDDEPTPSPQAYGGTPNPQTPGY
                     PDPSSPQVNPQYNPQTPGTPAMYNTDQFSPYAAPSPQGSYQPSPSPQSYHQVAPSPAG
                     YQNTHSPASYHPTPSPMAYQASPSPSPVGYSPMTPGAPSPGGYNPHTPGSGIEQNSSD
                     WVTTDIQVKVRDTYLDTQIVGQTGVIRSVTGGMCSVYLKDSEKVVSISSEHLEPITPT
                     KNNKVKVILGEDREATGVLLSIDGEDGIIRMDLEDQQIKILNLRFLGKLLEA"
     exon            146..305
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            306..371
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            372..383
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            384..453
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            454..522
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            523..588
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            589..619
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            620..688
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            689..940
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            941..1030
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            1031..1101
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            1102..1207
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            1208..1301
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            1302..1438
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            1439..1594
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            1595..1741
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            1742..1888
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            1889..2014
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            2015..2099
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            2100..2207
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            2208..2310
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            2311..2438
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            2439..2544
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            2545..2703
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            2704..2872
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            2873..3076
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            3077..3172
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     exon            3173..3549
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3527..3532
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /note="hexamer: AATAAA"
     polyA_site      3549
                     /gene="Supt5"
                     /gene_synonym="Spt5; Supt5h"
                     /note="major polyA site"
ORIGIN      
        1 aggccagcta ggcgttgtgt gatccgcagc tggcgcggaa gcttcaggtg gcaagcgatc
       61 gctgcggaag atgtcggaca gcgaagacag caacttctcc gaggaggagg acagcgagcg
      121 cagcagcgag gcggaggagg ccgaggttga ggaagaccag cgaagtgctg caggcagtga
      181 aaaagaggag gagcctgagg aagaggagga ggaagaggaa gaatacgatg aggaagaaga
      241 ggaggaagat gatgataggc cccccaagaa accacgccat gggggcttca ttttagatga
      301 ggctgatgta gatgatgaat atgaagatga agaccagtgg gaagatggag ctgaagatat
      361 cctggagaaa gaagagattg aagcctccaa tattgataac gttgtgctgg atgaagaccg
      421 ctctggggct cgtcgtctgc agaatctctg gagggaccag agagaagaag aactgggcga
      481 gtattacatg aagaaatatg ctaagtcgtc tgtgggagag acggtgtatg gagggtctga
      541 cgagctctca gatgacatca ctcagcagca gctgctccca ggagtcaagg accccaacct
      601 gtggactgtc aagtgtaaga ttggggagga acgagccacg gcaatttcct tgatgcggaa
      661 attcatcgct taccagttca cagacacacc cctgcagatt aagtcagtgg ttgcccctga
      721 gcacgtgaag ggctacatct atgtggaggc ctacaaacag acccatgtga agcaggccat
      781 tgaaggtgtg ggcaacctgc ggcttggcta ctggaaccag cagatggtgc ctattaagga
      841 gatgaccgat gtactcaagg tggtgaagga ggtggccaac ctgaagccga agtcctgggt
      901 ccgcctcaag cgaggcatct acaaagatga cattgctcag gtggactatg tggagcccag
      961 ccagaacacc atttccctga agatgatccc gcgcatcgac tacgaccgca tcaaagcccg
     1021 aatgagcctg aaagactggt ttgccaaaag gaagaagttc aagcggcctc cacagaggct
     1081 ctttgatgca gagaagatca ggtccttggg gggtgatgtt gcctctgatg gtgacttcct
     1141 catctttgag gggaaccgct acagccgaaa gggcttcctg ttcaagagct ttgccatgtc
     1201 tgctgtgatt acagaaggtg tgaagcccac actgtcagag ctggaaaagt ttgaagatca
     1261 gcctgagggc atcgacctgg aggttgtgac tgaaagcaca gggaaggagc gggaacacaa
     1321 tttccagcct ggggacaatg tggaggtgtg cgagggcgag ctcatcaacc tacagggcaa
     1381 ggtcctcagc gtggatggca acaagatcac tatcatgccc aagcacgagg acctcaagga
     1441 catgcttgag ttccccgctc aggaacttcg gaagtacttc aagatggggg accacgtaaa
     1501 agtgattgct ggccgatttg agggtgacac aggtctcatt gtgcgggtgg aagagaactt
     1561 tgttattctc ttttcagacc tcaccatgca tgagttgaaa gtgcttcccc gagacctgca
     1621 gctctgctca gagacagcct caggcgtgga tgttgggggc cagcatgagt ggggtgagct
     1681 ggtgcagctg gatccccgta ctgtgggtgt catcgtgcgg ctagagcgag aaaccttcca
     1741 ggttctcaac atgcacggga aggtggtgac cgttaggcac caggccgtga cgcagaagaa
     1801 ggacaaccgc ttcgctgtgg ctctggactc ggatcagaac aacatccatg tgaaggacat
     1861 tgtcaaggtc atcgatggcc ctcactcagg ccgagagggt gagatccgcc atctgtaccg
     1921 cagctttgcc ttcctgcact gcaagaagct ggtggagaac ggcggcatgt ttgtctgtaa
     1981 ggcacggcac ctggtgttgg ctgggggctc aaagccccgg gatgtgacca atttaactgt
     2041 tggtggcttc actcctatga gcccccggat cagcagccct atgcacccca gtgctgaagg
     2101 tcagcatggt ggctttggaa gcccaggtgg catgagcagg ggtcgaggga gaagagacaa
     2161 tgaactcata ggccagactg tgcgtatctc ccagggaccc tacaaaggct acattggtgt
     2221 ggtgaaggat gccacagagt ccacggccag agtagaactg cattctacct gccagaccat
     2281 ctctgtggat cgccagcggc tcaccacggt cgactcccag cgtccaggtg gcatgacctc
     2341 tacatatgga cggactccca tgtatggctc tcagacaccc atgtatggct ctggctcccg
     2401 aacacctatg tatggctccc agacaccttt gcaggatggc agccgcactc cacattatgg
     2461 ctcacagaca cccctgcatg atggtagccg cactcctgct cagagtgggg cctgggaccc
     2521 caacaaccca aacacgcctt ccagggctga ggaggaatac gaatatgcct ttgacgacga
     2581 acccacccca tccccacaag catatggggg aaccccgaat ccccaaacac ccggctaccc
     2641 agacccatca tccccccagg tcaatccaca gtacaatcca cagacaccag ggacgccagc
     2701 catgtacaac acagaccagt tctcccccta cgctgccccc tctccacagg ggtcttacca
     2761 gcccagcccc agcccccaga gctaccacca agtggcacca agtccagcag gctatcagaa
     2821 cacccattcc ccagccagct atcacccgac accgtcacct atggcctatc aggctagtcc
     2881 cagcccaagc cctgttggct acagtccaat gacccctgga gcaccttctc ctggaggtta
     2941 caatccccac acaccgggct caggcattga gcagaactct agcgactggg tgaccactga
     3001 tatccaggtg aaggttcgag acacctatct ggacacacaa atagtggggc agacaggcgt
     3061 catccgcagt gtcacgggag gcatgtgctc cgtgtacctg aaggacagtg agaaggtggt
     3121 cagcatctcc agtgaacatc tggagcccat cacgcccacc aagaacaaca aggtgaaggt
     3181 gattctgggt gaggaccgag aggctaccgg ggtcctactg agcattgatg gtgaggatgg
     3241 catcatccgc atggacctag aggaccagca gatcaagatt ctaaacctcc gcttcctagg
     3301 gaagctcctg gaagcctgac gcccaagtgt gcagtgcaga catggagcca gcagcccctc
     3361 tggccttgtt tggcctagca tggaaccctg agtctggagc aagccagggc aatcactctg
     3421 tatttccttt tcctccttcc ctgatactct aggagtcaga gcagagtctg aggaatgttc
     3481 ctgccttctt ctgcagcccc agcttgactt tgtgttcagg tctttcaata aagagaagct
     3541 gtttgaaaa
//
