LOCUS       NM_019458               1953 bp    mRNA    linear   ROD 02-MAY-2024
DEFINITION  Mus musculus Paf1, RNA polymerase II complex component (Paf1),
            mRNA.
ACCESSION   NM_019458
VERSION     NM_019458.3
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 1953)
  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 1953)
  AUTHORS   Gaballa,A., Gebhardt-Wolf,A., Krenz,B., Mattavelli,G., John,M.,
            Cossa,G., Andreani,S., Schulein-Volk,C., Montesinos,F., Vidal,R.,
            Kastner,C., Ade,C.P., Kneitz,B., Gasteiger,G., Gallant,P.,
            Rosenfeldt,M., Riedel,A. and Eilers,M.
  TITLE     PAF1c links S-phase progression to immune evasion and MYC function
            in pancreatic carcinoma
  JOURNAL   Nat Commun 15 (1), 1446 (2024)
   PUBMED   38365788
  REMARK    GeneRIF: PAF1c links S-phase progression to immune evasion and MYC
            function in pancreatic carcinoma.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1953)
  AUTHORS   Ding,L., Paszkowski-Rogacz,M., Mircetic,J., Chakraborty,D. and
            Buchholz,F.
  TITLE     The Paf1 complex positively regulates enhancer activity in mouse
            embryonic stem cells
  JOURNAL   Life Sci Alliance 4 (3), e202000792 (2020)
   PUBMED   33376128
  REMARK    GeneRIF: The Paf1 complex positively regulates enhancer activity in
            mouse embryonic stem cells.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 1953)
  AUTHORS   Hou,L., Wang,Y., Liu,Y., Zhang,N., Shamovsky,I., Nudler,E., Tian,B.
            and Dynlacht,B.D.
  TITLE     Paf1C regulates RNA polymerase II progression by modulating
            elongation rate
  JOURNAL   Proc Natl Acad Sci U S A 116 (29), 14583-14592 (2019)
   PUBMED   31249142
  REMARK    GeneRIF: Study shows that the Paf1 complex (Paf1C) modulates Pol II
            elongation rate, and loss of Paf1 results in accumulation of Ser5P
            in the first 20 to 30 kb of gene bodies, coinciding with reduction
            of histone H2B ubiquitylation specifically within this region.
            Moreover, reduced elongation rates provoked by Paf1 depletion
            resulted in defects in Pol II processivity and premature
            termination of transcription.
REFERENCE   5  (bases 1 to 1953)
  AUTHORS   Hetzner,K., Garcia-Cuellar,M.P., Buttner,C. and Slany,R.K.
  TITLE     The interaction of ENL with PAF1 mitigates polycomb silencing and
            facilitates murine leukemogenesis
  JOURNAL   Blood 131 (6), 662-673 (2018)
   PUBMED   29217648
  REMARK    GeneRIF: ENL overcomes polycomb silencing through recruitment of
            PAF1 via the conserved YEATS domain, which recognizes acetylated
            histone H3.
REFERENCE   6  (bases 1 to 1953)
  AUTHORS   Guo,G., Huss,M., Tong,G.Q., Wang,C., Li Sun,L., Clarke,N.D. and
            Robson,P.
  TITLE     Resolution of cell fate decisions revealed by single-cell gene
            expression analysis from zygote to blastocyst
  JOURNAL   Dev Cell 18 (4), 675-685 (2010)
   PUBMED   20412781
REFERENCE   7  (bases 1 to 1953)
  AUTHORS   Ponnusamy,M.P., Deb,S., Dey,P., Chakraborty,S., Rachagani,S.,
            Senapati,S. and Batra,S.K.
  TITLE     RNA polymerase II associated factor 1/PD2 maintains self-renewal by
            its interaction with Oct3/4 in mouse embryonic stem cells
  JOURNAL   Stem Cells 27 (12), 3001-3011 (2009)
   PUBMED   19821493
  REMARK    GeneRIF: show that Paf1/PD2 is overexpressed in mouse embryonic
            stem cells (ESCs) and is involved in the maintenance of mouse ESCs.
REFERENCE   8  (bases 1 to 1953)
  AUTHORS   Ding,L., Paszkowski-Rogacz,M., Nitzsche,A., Slabicki,M.M.,
            Heninger,A.K., de Vries,I., Kittler,R., Junqueira,M.,
            Shevchenko,A., Schulz,H., Hubner,N., Doss,M.X., Sachinidis,A.,
            Hescheler,J., Iacone,R., Anastassiadis,K., Stewart,A.F.,
            Pisabarro,M.T., Caldarelli,A., Poser,I., Theis,M. and Buchholz,F.
  TITLE     A genome-scale RNAi screen for Oct4 modulators defines a role of
            the Paf1 complex for embryonic stem cell identity
  JOURNAL   Cell Stem Cell 4 (5), 403-415 (2009)
   PUBMED   19345177
REFERENCE   9  (bases 1 to 1953)
  AUTHORS   Youn,M.Y., Yoo,H.S., Kim,M.J., Hwang,S.Y., Choi,Y., Desiderio,S.V.
            and Yoo,J.Y.
  TITLE     hCTR9, a component of Paf1 complex, participates in the
            transcription of interleukin 6-responsive genes through regulation
            of STAT3-DNA interactions
  JOURNAL   J Biol Chem 282 (48), 34727-34734 (2007)
   PUBMED   17911113
REFERENCE   10 (bases 1 to 1953)
  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     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from AC149606.6.
            
            On Mar 21, 2007 this sequence version replaced NM_019458.2.
            
            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 :: BC029843.1, AK148538.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849375, SAMN00849380
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-259               AC149606.6         120090-120348       c
            260-289             AC149606.6         119646-119675       c
            290-382             AC149606.6         118209-118301       c
            383-504             AC149606.6         117805-117926       c
            505-571             AC149606.6         117649-117715       c
            572-673             AC149606.6         117472-117573       c
            674-779             AC149606.6         117287-117392       c
            780-848             AC149606.6         117142-117210       c
            849-952             AC149606.6         116957-117060       c
            953-1069            AC149606.6         116618-116734       c
            1070-1198           AC149606.6         116395-116523       c
            1199-1304           AC149606.6         114791-114896       c
            1305-1395           AC149606.6         114595-114685       c
            1396-1953           AC149606.6         113961-114518       c
FEATURES             Location/Qualifiers
     source          1..1953
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="7"
                     /map="7 16.73 cM"
     gene            1..1953
                     /gene="Paf1"
                     /gene_synonym="5730511K23Rik"
                     /note="Paf1, RNA polymerase II complex component"
                     /db_xref="GeneID:54624"
                     /db_xref="MGI:MGI:1923988"
     exon            1..259
                     /gene="Paf1"
                     /gene_synonym="5730511K23Rik"
                     /inference="alignment:Splign:2.1.0"
     CDS             213..1820
                     /gene="Paf1"
                     /gene_synonym="5730511K23Rik"
                     /note="Paf1, RNA polymerase II associated factor, homolog"
                     /codon_start=1
                     /product="RNA polymerase II-associated factor 1 homolog"
                     /protein_id="NP_062331.2"
                     /db_xref="CCDS:CCDS21043.1"
                     /db_xref="GeneID:54624"
                     /db_xref="MGI:MGI:1923988"
                     /translation="MAPTIQTQAQREDGHRPNSHRTLPERSGVVCRVKYCNSLPDIPF
                     DPKFITYPFDQNRFVQYKATSLEKQHKHDLLTEPDLGVTIDLINPDTYRIDPNVLLDP
                     ADEKLLEEEIQAPTSSKRSQQHAKVVPWMRKTEYISTEFNRYGISNEKPEVKIGVSVK
                     QQFTEEEIYKDRDSQITAIEKTFEDAQKSISQHYSKPRVTPVEVMPVFPDFKMWINPC
                     AQVIFDSDPAPKDTSGAAALEMMSQAMIRGMMDEEGNQFVAYFLPVEETLKKRKRDQE
                     EEMDYAPDDVYDYKIAREYNWNVKNKASKGYEENYFFIFREGDGVYYNELETRVRLSK
                     RRAKAGVQSGTNALLVVKHRDMNEKELEAQEARKAQLENHEPEEEEEEEMEAEEKEAG
                     GSDEEQEKGSSSEKEGSEDEHSGSESDREEGDRDEASDKSGSGEDESSEDEARAARDK
                     EEIFGSDADSEDDADSDDEDRGQAHRGSDNDSDSGSDGGGQRSRSQSRSRSRSASPFP
                     SGSEHSAQEDGSEAAASDSSEADSDSD"
     exon            260..289
                     /gene="Paf1"
                     /gene_synonym="5730511K23Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            290..382
                     /gene="Paf1"
                     /gene_synonym="5730511K23Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            383..504
                     /gene="Paf1"
                     /gene_synonym="5730511K23Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            505..571
                     /gene="Paf1"
                     /gene_synonym="5730511K23Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            572..673
                     /gene="Paf1"
                     /gene_synonym="5730511K23Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            674..779
                     /gene="Paf1"
                     /gene_synonym="5730511K23Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            780..848
                     /gene="Paf1"
                     /gene_synonym="5730511K23Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            849..952
                     /gene="Paf1"
                     /gene_synonym="5730511K23Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            953..1069
                     /gene="Paf1"
                     /gene_synonym="5730511K23Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1070..1198
                     /gene="Paf1"
                     /gene_synonym="5730511K23Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1199..1304
                     /gene="Paf1"
                     /gene_synonym="5730511K23Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1305..1395
                     /gene="Paf1"
                     /gene_synonym="5730511K23Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1396..1953
                     /gene="Paf1"
                     /gene_synonym="5730511K23Rik"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1933..1938
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Paf1"
                     /gene_synonym="5730511K23Rik"
                     /note="hexamer: AATAAA"
     polyA_site      1953
                     /gene="Paf1"
                     /gene_synonym="5730511K23Rik"
                     /note="major polyA site"
ORIGIN      
        1 gggagctgca agtctgtgtc cgacgctgtc tgtgctctta cttcagtcac acccgagccc
       61 ttctcgtcgg cccacttcat cccctttccc cgcggagccc ggcgtctacg ggagcctgtc
      121 cttggatccg gcgtctctca aagtcggtac gccactcagc gtccgcctgc ggccagcgag
      181 gacgcctacc gcgccgccgt cgcctggtcg cgatggcgcc caccatccag acccaggccc
      241 agagggaaga tggccacagg cccaattccc accggacctt gcctgagagg tctggagtag
      301 tctgccgagt caagtactgc aatagccttc ctgacatccc atttgacccc aagttcatca
      361 cctacccctt cgaccagaac aggtttgttc agtacaaagc aacctccttg gagaaacagc
      421 acaaacatga cctcctgact gagccagatc tgggggtcac cattgatctc atcaaccctg
      481 acacctaccg cattgatccc aatgttcttc tggatccggc tgatgagaag cttctagaag
      541 aggagattca ggctcccacc agctctaaga gatcccagca gcatgcaaag gtggtaccgt
      601 ggatgcgtaa gacagagtat atctccactg agttcaacag atatggcatc tccaatgaga
      661 agcctgaagt caagattggg gtttctgtga aacagcagtt cacagaggaa gaaatataca
      721 aagacaggga cagccaaatc acagccattg aaaagacttt tgaagatgcc cagaaatcga
      781 tctcccagca ttacagcaag ccccgagtga caccagtgga ggtcatgcct gtcttcccag
      841 attttaagat gtggataaac ccatgtgctc aggtcatttt tgactcagac ccagccccca
      901 aggacacaag tggtgcagct gcattagaga tgatgtctca ggccatgatc aggggcatga
      961 tggatgagga agggaaccag tttgtggctt attttctgcc tgtggaagaa acactaaaga
     1021 aacgaaagcg ggaccaagag gaagagatgg actatgcacc agatgatgtg tatgactata
     1081 agattgctcg ggaatacaac tggaatgtga agaacaaggc cagtaagggc tatgaggaga
     1141 actatttctt catcttcaga gagggtgacg gagtttacta caatgagctg gagaccaggg
     1201 tccgtctaag taagcgccgg gccaaggctg gggttcagtc aggtaccaat gccttgcttg
     1261 tcgtcaaaca ccgtgacatg aatgagaagg aattagaagc ccaggaggca cgaaaggccc
     1321 agttggaaaa ccacgaacca gaggaagagg aggaggaaga gatggaggct gaagagaaag
     1381 aagctggggg ctcagatgag gaacaggaga agggtagcag cagtgagaaa gaaggcagcg
     1441 aggatgaaca ctctggaagt gagagtgacc gagaagaggg tgacagagat gaggcaagtg
     1501 acaagagtgg cagcggtgag gatgaaagca gtgaggatga agcacgtgct gcccgggaca
     1561 aagaggagat ttttggtagt gatgctgatt cagaagatga tgctgactct gatgatgagg
     1621 acagagggca ggcccacagg ggcagtgaca atgactcgga cagcggcagt gatggtggtg
     1681 gccagaggag ccgcagccag agcaggagtc gtagccggag tgccagcccc ttccccagtg
     1741 gcagtgagca ctcagctcag gaagatggca gtgaagcagc agcctctgat tccagtgagg
     1801 ctgacagtga cagtgattga gcctcaaggc tttctaatga gatcagcaca gacaccattt
     1861 ttagggcagg gaagcacttt tctagttgtc tgttttgtga gcttttgtca ctacccctca
     1921 atctttgctg ttaataaacc taacttctct tga
//
