LOCUS       NM_001395127            4652 bp    mRNA    linear   ROD 09-APR-2024
DEFINITION  Rattus norvegicus treacle ribosome biogenesis factor 1 (Tcof1),
            mRNA.
ACCESSION   NM_001395127 XM_039096686
VERSION     NM_001395127.1
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 4652)
  AUTHORS   Weber,T.J., Qian,W.J., Smith,J.N., Gritsenko,M.A., Hu,D.,
            Chrisler,W.B. and Timchalk,C.
  TITLE     Stable Acinar Progenitor Cell Model Identifies Treacle-Dependent
            Radioresistance
  JOURNAL   Radiat Res 192 (2), 135-144 (2019)
   PUBMED   31141469
  REMARK    GeneRIF: Acinar Progenitor Cell Model Identifies Treacle-Dependent
            Radioresistance
REFERENCE   2  (bases 1 to 4652)
  AUTHORS   Werner,A., Iwasaki,S., McGourty,C.A., Medina-Ruiz,S.,
            Teerikorpi,N., Fedrigo,I., Ingolia,N.T. and Rape,M.
  TITLE     Cell-fate determination by ubiquitin-dependent regulation of
            translation
  JOURNAL   Nature 525 (7570), 523-527 (2015)
   PUBMED   26399832
REFERENCE   3  (bases 1 to 4652)
  AUTHORS   Chauvet,C., Menard,A. and Deng,A.Y.
  TITLE     Two candidate genes for two quantitative trait loci epistatically
            attenuate hypertension in a novel pathway
  JOURNAL   J Hypertens 33 (9), 1791-801 (2015)
   PUBMED   26103128
  REMARK    GeneRIF: The current work has provided the premier evidence that
            haloacid dehalogenase-like hydrolase domain containing 2/C18QTL4
            and Tcof1/C18QTL3 may be involved in polygenic hypertension.
REFERENCE   4  (bases 1 to 4652)
  AUTHORS   Brehm,M.A., Wundenberg,T., Williams,J., Mayr,G.W. and Shears,S.B.
  TITLE     A non-catalytic role for inositol 1,3,4,5,6-pentakisphosphate
            2-kinase in the synthesis of ribosomal RNA
  JOURNAL   J Cell Sci 126 (Pt 2), 437-444 (2013)
   PUBMED   23203802
REFERENCE   5  (bases 1 to 4652)
  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   6  (bases 1 to 4652)
  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   7  (bases 1 to 4652)
  AUTHORS   Valdez,B.C., Henning,D., So,R.B., Dixon,J. and Dixon,M.J.
  TITLE     The Treacher Collins syndrome (TCOF1) gene product is involved in
            ribosomal DNA gene transcription by interacting with upstream
            binding factor
  JOURNAL   Proc Natl Acad Sci U S A 101 (29), 10709-10714 (2004)
   PUBMED   15249688
REFERENCE   8  (bases 1 to 4652)
  AUTHORS   Wise,C.A., Chiang,L.C., Paznekas,W.A., Sharma,M., Musy,M.M.,
            Ashley,J.A., Lovett,M. and Jabs,E.W.
  TITLE     TCOF1 gene encodes a putative nucleolar phosphoprotein that
            exhibits mutations in Treacher Collins Syndrome throughout its
            coding region
  JOURNAL   Proc Natl Acad Sci U S A 94 (7), 3110-3115 (1997)
   PUBMED   9096354
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000018.1.
            
            On Jun 4, 2021 this sequence version replaced XM_039096686.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR26643296.37866.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760383,
                                           SAMEA5760386 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-234               JAXUCZ010000018.1  56570494-56570727   c
            235-290             JAXUCZ010000018.1  56567659-56567714   c
            291-433             JAXUCZ010000018.1  56565433-56565575   c
            434-495             JAXUCZ010000018.1  56561980-56562041   c
            496-682             JAXUCZ010000018.1  56561085-56561271   c
            683-756             JAXUCZ010000018.1  56560205-56560278   c
            757-960             JAXUCZ010000018.1  56557619-56557822   c
            961-1173            JAXUCZ010000018.1  56555520-56555732   c
            1174-1389           JAXUCZ010000018.1  56554812-56555027   c
            1390-1587           JAXUCZ010000018.1  56554521-56554718   c
            1588-1746           JAXUCZ010000018.1  56554265-56554423   c
            1747-1968           JAXUCZ010000018.1  56553872-56554093   c
            1969-2145           JAXUCZ010000018.1  56553602-56553778   c
            2146-2253           JAXUCZ010000018.1  56551873-56551980   c
            2254-2442           JAXUCZ010000018.1  56551511-56551699   c
            2443-2649           JAXUCZ010000018.1  56551217-56551423   c
            2650-2757           JAXUCZ010000018.1  56550178-56550285   c
            2758-2941           JAXUCZ010000018.1  56546075-56546258   c
            2942-3060           JAXUCZ010000018.1  56545060-56545178   c
            3061-3283           JAXUCZ010000018.1  56542852-56543074   c
            3284-3366           JAXUCZ010000018.1  56542350-56542432   c
            3367-3550           JAXUCZ010000018.1  56541587-56541770   c
            3551-4078           JAXUCZ010000018.1  56539502-56540029   c
            4079-4173           JAXUCZ010000018.1  56538567-56538661   c
            4174-4223           JAXUCZ010000018.1  56538102-56538151   c
            4224-4652           JAXUCZ010000018.1  56537437-56537865   c
FEATURES             Location/Qualifiers
     source          1..4652
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="18"
                     /map="18q12.1"
     gene            1..4652
                     /gene="Tcof1"
                     /note="treacle ribosome biogenesis factor 1"
                     /db_xref="GeneID:291571"
                     /db_xref="RGD:1309850"
     exon            1..234
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     CDS             127..4200
                     /gene="Tcof1"
                     /note="Treacher Collins-Franceschetti syndrome 1 homolog"
                     /codon_start=1
                     /product="treacle protein"
                     /protein_id="NP_001382056.1"
                     /db_xref="GeneID:291571"
                     /db_xref="RGD:1309850"
                     /translation="MAEARKRRELLPLIYHHLLQAGYVRAAREVKEQSGQKNFLTHPV
                     TLLDIYTHWQQTSELGLKQKAENDETLQAKKSRVSDPISSSESSEEEEEEAETGTAKA
                     TPRPTPVNSTAAALPSNMKQKAKTKTANKTVNSVLPPASGKTAVQLLSGKSPKKSAEP
                     LASIVLASETEEEGSAQVLGPTAKPGMVSAGQASSSSEDTSSSSDETDVEVKPSTKPQ
                     AKAPVTPAKDPPARTASGPTKLGDVTPASARAAATKAAESESSEEDSESEDEAPAGLP
                     SQVTTPGKGLHVRAASVSAKGMSRKGPISATPEKTGPITPQAKTGRPQKDMETSSEDD
                     SDSEDEMPVTVTTPQARPSGKSPQVRGTSAPAKESSQKGAPAVTPGKTRPVAAQAQAG
                     KPETRSSEESESDSGETPAAGTLTTSPAKVKPLGKSPQVRPASTANLGSSRKGANPPC
                     LGKVGSAVLKVQTGKEEEDSESSSEESDSDGAVNAAKAKPPGRKATPALPRKTGPVAT
                     QVKTDKGKDHAESSEESTDSEEEAAPAASAAQAKPAPIKQMKASPRKGTAASTTGASA
                     SSPRKAGTKTSSASLSSLALPKGTQKPDVDSSSEWESEGAAPGTTGVQGKSGGKGLQG
                     RAASGQGVAPLHAQKTGPSGAQVKATAQEDSESSEEESSSEEEDETPAQVMALGRLPP
                     AKANPPPTKTPLASASGKAAAVVPPPKGKAPASTVQNSTISARGQRAVPATGKAGAPA
                     TQAQKGPMAGTGEDSESSSEEESDSEEETPAQVKPVGKTSQVRAASAPVKESPNKGAY
                     SGTSRKTGPPATQAQTGKTEDSESSSEESDSDREIPPAITPAQDGISQSTRSKLSGLA
                     PPEKSTEESSESSDEDLPSGQAIKSPPISVNPNRGPAAPVPTPEQHQAVNTRKAQASG
                     STAQSSSSESEDEDMIPATQPPTLAIRTNVTTPTALSQTAAQPSKSEQSSRMPKGKKP
                     KTASTQISSAMEALPVTLPQSTPAQSKTTNKLGDPKLAEKQQLTPGYPKAPRSSEDSS
                     DTSSESEEDAKRPQMSKSSQRLDPDASQKETVVEETPTESSDDEMVAPSQSLLSGYVT
                     PGLTVANSQPSKATPRPDANPLVSSAPATKDNPDGKQKSKSQDSTADTTLRKTGRKEA
                     SSGSTPQKPKKPKKSTLSSPAPAQTLPNSITQRLLEQPWPLSEAQVQASVMKVLTELL
                     EQERQKATEAIKESGKKGQKRKLSGDQVEAGAPKNKKKKQQLAAGTSAGSPEKASRTS
                     KAKSKLNKGSAGGKGKGSPVPQGAKEKPEGKLGIKLESGEQSDPKSKKEKKKSSKKKK
                     DKEKKEKKKGKKTPAKDSASPVQKKKKKKKKTAEPAV"
     exon            235..290
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            291..433
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            434..495
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            496..682
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            683..756
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            757..960
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            961..1173
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            1174..1389
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            1390..1587
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            1588..1746
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            1747..1968
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            1969..2145
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            2146..2253
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            2254..2442
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            2443..2649
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            2650..2757
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            2758..2941
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            2942..3060
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            3061..3283
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            3284..3366
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            3367..3550
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            3551..4078
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            4079..4173
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            4174..4223
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
     exon            4224..4652
                     /gene="Tcof1"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 cccagcgcgc cgcgcggccc ggtgacgcga ggccggaagt gagggacatg aggttctagg
       61 gcgcgaggga agcggctagc gggggcgagg gggcgtgcac gtgaatagcc tggccggatc
      121 tctggcatgg ccgaggccag gaagcggcgg gagctgcttc cccttattta ccatcatctg
      181 ttgcaagcag gctacgtccg cgcggcgcgg gaagttaagg agcagagcgg ccagaagaat
      241 ttcctgactc atcccgtcac ccttctggac atctatacac actggcaaca gacctcagag
      301 ctcggcctga agcagaaggc agagaatgat gagacactgc aagccaagaa gtctcgagtg
      361 tcagacccta ttagcagctc agagagctca gaggaggagg aagaggaggc agaaacggga
      421 actgccaaag ccaccccaag accgacacct gtcaattcca cagctgcagc tttgccatca
      481 aacatgaaac aaaaggcaaa gaccaagaca gccaacaaga cggtgaactc cgtgctgccc
      541 cctgcgtccg gaaagacagc ggtccagctg ctgtctggga agtcacccaa gaagtcagca
      601 gagcccttgg ccagcattgt cttggcctca gaaactgagg aggagggcag tgcccaagtc
      661 ctgggaccca ctgccaagcc tggaatggtg tcagcaggcc aagccagcag ttccagcgag
      721 gatacctcca gctcaagcga tgagacagat gtggaggtga aaccctcaac aaaaccacag
      781 gccaaagctc cagtaactcc tgccaaggat cctccagcaa gaacagcctc aggccctacc
      841 aagctagggg atgtgacacc cgcatcagca agggctgcag ccactaaagc ggcagagtct
      901 gagagcagtg aggaggactc agagagtgag gacgaggccc ctgctggcct gcctagccag
      961 gtaacaaccc ctggaaaagg tcttcatgtc agagctgcct cagtttctgc caaggggatg
     1021 tctaggaaag ggcccatctc agcaacccca gagaagactg ggcccataac cccccaagcc
     1081 aagacaggaa ggccacagaa ggatatggaa accagcagtg aggacgattc tgacagtgag
     1141 gatgagatgc cagtcactgt gaccactcct caggcaaggc cttccgggaa gagccctcag
     1201 gtcagaggta cctctgcccc tgccaaggag tcatcccaga aaggggctcc tgcagtcacc
     1261 cctgggaaga caagacctgt ggcagcccag gcccaggcag ggaagccaga gaccaggagc
     1321 agtgaggagt cagagagcga cagtggagag acaccagcag ctgggactct aactacaagt
     1381 cctgccaagg tgaaaccttt ggggaaaagc ccccaggtca gacctgcctc cactgcaaac
     1441 ctggggtcat ctagaaaagg agccaaccca ccctgccttg ggaaggtggg gtcagcagtt
     1501 ctcaaggtcc aaacgggaaa ggaagaagag gactcagaga gcagcagcga ggagtcggac
     1561 agtgacgggg ctgtgaacgc agccaaggca aagcccccag ggagaaaagc cactccagca
     1621 ctccctcgga agacggggcc tgtggccacc caggtcaaga ctgacaaggg caaagaccac
     1681 gcagagagca gcgaggagtc gaccgacagc gaggaggagg cagcaccagc agcttctgct
     1741 gctcaggcta aaccagctcc gataaagcag atgaaagctt cccctaggaa aggcacggct
     1801 gcatccacca caggggcgag cgcctcgtcc cctcgtaagg caggaacaaa gacctcttca
     1861 gccagcctat catccctggc tctgcccaag ggcacccaga agccagatgt ggactcctct
     1921 agcgagtggg agtcagaagg agctgctcct ggcaccaccg gggtacaggg aaagtctggg
     1981 ggaaagggcc tccaagggag agctgcctca ggacaagggg tggccccact gcacgctcag
     2041 aagacagggc cttcaggtgc ccaggtcaaa gccacagcac aggaagactc agagagcagc
     2101 gaagaggaat ccagcagtga agaagaggat gagaccccag cacaggtcat ggccttgggg
     2161 agacttcctc cggccaaagc caacccacct cccactaaga cacctctggc atctgcatct
     2221 ggaaaagcgg ccgcagtagt tcctccaccc aagggaaaag cacctgcgag tactgttcag
     2281 aacagcacca tctctgccag gggccagcgg gctgtgccgg ccacgggaaa agcaggggcc
     2341 ccagcaaccc aagcacagaa ggggcccatg gctggcacag gggaggactc agagagcagc
     2401 agtgaagagg agtctgacag tgaagaagaa actccagccc aggtcaagcc tgtggggaag
     2461 acctctcagg tcagagctgc ctcggcccct gtcaaggagt ctcctaacaa aggagcttat
     2521 tcaggaacct ccaggaagac agggcctcca gctacccaag ctcagacagg gaagacagag
     2581 gactcagaga gcagtagtga ggaatctgac agtgacagag agataccacc agccatcacc
     2641 ccagcccagg atggtatctc ccagtctacc agaagcaaac tctcaggtct ggcaccccca
     2701 gagaagagca cagaagagtc ctcagagagc agtgatgagg atctgccatc tggccaggcc
     2761 attaaatccc ctccaatttc tgtcaaccct aatcgtggtc cagctgcccc agttccaacc
     2821 ccagaacaac accaggctgt gaacacaagg aaggcccagg cctcaggcag cactgcccag
     2881 agctcctcct ccgagagtga ggatgaggac atgattcctg ccacacaacc ccccaccctt
     2941 gccatcagaa ccaatgtgac tacgcccaca gccctctcac aaacagccgc ccaacccagc
     3001 aagagtgagc agtctagtcg gatgccaaaa ggcaagaaac caaagacagc gtccactcag
     3061 atcagcagtg ccatggaagc actccccgtg acgcttcccc agagcacacc tgcccagtcc
     3121 aaaaccacca acaagctggg ggaccccaaa cttgctgaga agcagcagct taccccaggc
     3181 taccccaaag cccccaggag ctcagaggac agcagtgaca cctcttcaga gagcgaggag
     3241 gatgccaaga gaccccagat gtccaagtcg tcccaaaggc tggatccaga cgcttcccag
     3301 aaggaaactg tggtagagga gacccctaca gaatccagcg acgacgagat ggtggccccc
     3361 tcacagtctc tcctctcagg ttatgtgact cccggcttaa ctgtggccaa ttcccagcct
     3421 tcaaaagcta ctcctaggcc agacgccaac cccttggttt cctctgctcc agccaccaaa
     3481 gataacccag atggcaagca gaaatcaaaa tcccaagact ccactgcaga caccacactc
     3541 cgtaaaaccg gtaggaaaga ggcctcctca ggatccacac ctcagaagcc caagaagccc
     3601 aagaagagca ccttgagctc accagccccg gcacagacac tgccgaacag catcacccag
     3661 cgcctcctgg agcagccctg gcccctgagt gaggcacagg tgcaggcctc tgtgatgaag
     3721 gtcctgacag aactgctgga gcaggaaagg cagaaggcca ccgaggccat caaggagagt
     3781 ggaaagaagg gccagaaacg gaaactatca ggggaccagg tagaagctgg ggccccaaag
     3841 aacaagaaga agaagcagca gcttgcggct gggacaagtg ctggttcccc agaaaaggcc
     3901 tccaggactt ccaaggcaaa atcaaaacta aacaaaggga gtgctggtgg caaggggaag
     3961 gggtctcctg tcccccaagg agccaaggag aagcccgaag gcaagctggg gataaagctt
     4021 gagagtggag agcagagtga cccgaagagc aagaaggaaa agaagaaatc cagtaagaaa
     4081 aaaaaagaca aggaaaaaaa ggaaaagaaa aaaggaaaaa agaccccagc caaggactct
     4141 gcctcaccgg tccagaagaa gaaaaagaag aagaagaaga cagccgagcc tgctgtgtga
     4201 gggccaggca gcgcatagaa cagagtcttg gcagagcgtg accatcccca ggcctctgac
     4261 ctctgggcac tgtgagttgg gactggactt tttaatttgc cctccctcgg cagaaggtga
     4321 tggctggcgt tgctgctagc caagccagtg agcctgcagg gaagccgcag ttccaggagg
     4381 aagtgagaca agaacacgcc ccctctgagt actacatgag atgtgtacag tatatatatt
     4441 tttttaagtg acttgcctct cccccttcaa atcaacatgc gcagaggcct cgggacctcc
     4501 ctccacatta ttctgcagac tcagcaaggt cctgtgtgtg gttcatccca taccctggat
     4561 ccctgactta tcctgaggcc ttgttccatc agtttttcca actgttttgt ttttttaaaa
     4621 aagaactcaa aataaaagac tttaaatata aa
//
