LOCUS       NM_207614               1996 bp    mRNA    linear   ROD 30-MAR-2024
DEFINITION  Rattus norvegicus RNA 2',3'-cyclic phosphate and 5'-OH ligase
            (Rtcb), mRNA.
ACCESSION   NM_207614 XM_343185
VERSION     NM_207614.2
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 1996)
  AUTHORS   Lu,Y., Liang,F.X. and Wang,X.
  TITLE     A synthetic biology approach identifies the mammalian UPR RNA
            ligase RtcB
  JOURNAL   Mol Cell 55 (5), 758-770 (2014)
   PUBMED   25087875
REFERENCE   2  (bases 1 to 1996)
  AUTHORS   Yoshihisa,T.
  TITLE     Handling tRNA introns, archaeal way and eukaryotic way
  JOURNAL   Front Genet 5, 213 (2014)
   PUBMED   25071838
  REMARK    Review article
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1996)
  AUTHORS   Popow,J., Jurkin,J., Schleiffer,A. and Martinez,J.
  TITLE     Analysis of orthologous groups reveals archease and DDX1 as tRNA
            splicing factors
  JOURNAL   Nature 511 (7507), 104-107 (2014)
   PUBMED   24870230
REFERENCE   4  (bases 1 to 1996)
  AUTHORS   Perez-Gonzalez,A., Pazo,A., Navajas,R., Ciordia,S.,
            Rodriguez-Frandsen,A. and Nieto,A.
  TITLE     hCLE/C14orf166 associates with DDX1-HSPC117-FAM98B in a novel
            transcription-dependent shuttling RNA-transporting complex
  JOURNAL   PLoS One 9 (3), e90957 (2014)
   PUBMED   24608264
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1996)
  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 1996)
  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 1996)
  AUTHORS   Popow,J., Englert,M., Weitzer,S., Schleiffer,A., Mierzwa,B.,
            Mechtler,K., Trowitzsch,S., Will,C.L., Luhrmann,R., Soll,D. and
            Martinez,J.
  TITLE     HSPC117 is the essential subunit of a human tRNA splicing ligase
            complex
  JOURNAL   Science 331 (6018), 760-764 (2011)
   PUBMED   21311021
REFERENCE   8  (bases 1 to 1996)
  AUTHORS   Wang,Y., Hai,T., Liu,Z., Zhou,S., Lv,Z., Ding,C., Liu,L., Niu,Y.,
            Zhao,X., Tong,M., Wang,L., Jouneau,A., Zhang,X., Ji,W. and Zhou,Q.
  TITLE     HSPC117 deficiency in cloned embryos causes placental abnormality
            and fetal death
  JOURNAL   Biochem Biophys Res Commun 397 (3), 407-412 (2010)
   PUBMED   20510672
REFERENCE   9  (bases 1 to 1996)
  AUTHORS   de Hoog,C.L., Foster,L.J. and Mann,M.
  TITLE     RNA and RNA binding proteins participate in early stages of cell
            spreading through spreading initiation centers
  JOURNAL   Cell 117 (5), 649-662 (2004)
   PUBMED   15163412
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000007.1.
            
            On Mar 19, 2021 this sequence version replaced NM_207614.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC078924.1, AY572415.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760383, SAMEA5760386
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-211               JAXUCZ010000007.1  19795393-19795603
            212-290             JAXUCZ010000007.1  19797040-19797118
            291-358             JAXUCZ010000007.1  19799444-19799511
            359-458             JAXUCZ010000007.1  19801512-19801611
            459-615             JAXUCZ010000007.1  19803351-19803507
            616-772             JAXUCZ010000007.1  19805652-19805808
            773-932             JAXUCZ010000007.1  19806594-19806753
            933-1108            JAXUCZ010000007.1  19807520-19807695
            1109-1297           JAXUCZ010000007.1  19808108-19808296
            1298-1408           JAXUCZ010000007.1  19808827-19808937
            1409-1528           JAXUCZ010000007.1  19811183-19811302
            1529-1996           JAXUCZ010000007.1  19814408-19814875
FEATURES             Location/Qualifiers
     source          1..1996
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="7"
                     /map="7q13"
     gene            1..1996
                     /gene="Rtcb"
                     /note="RNA 2',3'-cyclic phosphate and 5'-OH ligase"
                     /db_xref="GeneID:362855"
                     /db_xref="RGD:1303261"
     exon            1..211
                     /gene="Rtcb"
                     /inference="alignment:Splign:2.1.0"
     CDS             119..1636
                     /gene="Rtcb"
                     /EC_number="6.5.1.8"
                     /note="P55; 3'-phosphate/5'-hydroxy nucleic acid ligase;
                     tRNA-splicing ligase RtcB homolog"
                     /codon_start=1
                     /product="RNA-splicing ligase RtcB homolog"
                     /protein_id="NP_997497.2"
                     /db_xref="GeneID:362855"
                     /db_xref="RGD:1303261"
                     /translation="MSRNYNDELQFLDKINKNCWRIKKGFVPNMQVEGVFYVNDALEK
                     LMFEELRNACRGGGVGGFLPAMKQIGNVAALPGIVHRSIGLPDVHSGYGFAIGNMAAF
                     DMNDPEAVVSPGGVGFDINCGVRLLRTNLDESDVQPVKEQLAQAMFDHIPVGVGSKGV
                     IPMNAKDLEEALEMGVDWSLREGYAWAEDKEHCEEYGRMLQADPNKVSPRAKKRGLPQ
                     LGTLGAGNHYAEIQVVDEIFNEYAAKKMGIDHKGQVCVMIHSGSRGLGHQVATDALVA
                     MEKAMKRDKIIVNDRQLACARIASPEGQDYLKGMAAAGNYAWVNRSSMTFLTRQAFAK
                     VFNTTPDDLDLHVIYDVSHNIAKVEQHVVDGKERTLLVHRKGSTRAFPPHHPLIAVDY
                     QLTGQPVLIGGTMGTCSYVLTGTEQGMTETFGTTCHGAGRALSRAKSRRNLDFQDVLD
                     KLADMGIAIRVASPKLVMEEAPESYKNVTDVVNTCHDAGISKKAIKLRPIAVIKG"
     exon            212..290
                     /gene="Rtcb"
                     /inference="alignment:Splign:2.1.0"
     exon            291..358
                     /gene="Rtcb"
                     /inference="alignment:Splign:2.1.0"
     exon            359..458
                     /gene="Rtcb"
                     /inference="alignment:Splign:2.1.0"
     exon            459..615
                     /gene="Rtcb"
                     /inference="alignment:Splign:2.1.0"
     exon            616..772
                     /gene="Rtcb"
                     /inference="alignment:Splign:2.1.0"
     exon            773..932
                     /gene="Rtcb"
                     /inference="alignment:Splign:2.1.0"
     exon            933..1108
                     /gene="Rtcb"
                     /inference="alignment:Splign:2.1.0"
     exon            1109..1297
                     /gene="Rtcb"
                     /inference="alignment:Splign:2.1.0"
     exon            1298..1408
                     /gene="Rtcb"
                     /inference="alignment:Splign:2.1.0"
     exon            1409..1528
                     /gene="Rtcb"
                     /inference="alignment:Splign:2.1.0"
     exon            1529..1996
                     /gene="Rtcb"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 ctggggcgga gccggtcgcg cctgcgcact gagaggcggc gctgcgtgga gccggcggac
       61 agtgaggctg tttctctttc tacgtgtagc cgggaggtat cgctagctcg ccgccaccat
      121 gagtcgtaac tacaacgatg agctacagtt cttggacaag atcaataaga actgctggag
      181 gatcaagaag ggctttgtgc ccaacatgca ggttgaaggg gtgttttatg tgaatgacgc
      241 tctggaaaag ctcatgtttg aggagttacg gaatgcctgt cgaggtggtg gtgttggtgg
      301 cttcctgcca gccatgaagc agattggcaa tgtggcagcc ctgcctggaa tagttcatcg
      361 gtctattggg cttcctgatg tccactcagg ctacgggttt gccataggga acatggctgc
      421 ctttgatatg aatgaccctg aggcagttgt atccccaggt ggtgtcggat ttgatattaa
      481 ctgtggtgtc cgcttgctaa gaaccaattt agatgagagc gatgtacagc ctgtgaagga
      541 acaacttgcc caagctatgt ttgaccacat ccctgtcggg gtgggatcga aaggtgtcat
      601 tccaatgaat gccaaagact tggaggaggc attggagatg ggtgtggact ggtccctgag
      661 agaaggctat gcctgggctg aggacaagga gcactgtgag gagtatggaa ggatgctcca
      721 agccgacccc aataaggtct cacccagggc aaagaaaagg ggccttcctc agttggggac
      781 cctgggagca ggcaaccatt atgcagagat ccaggttgta gatgagattt tcaacgagta
      841 tgctgccaag aagatgggca tcgaccataa gggacaggtg tgcgtgatga tccacagcgg
      901 gagcagaggc ttgggccatc aagtagctac agacgcactg gtagctatgg agaaagccat
      961 gaagagagac aagattatag tcaatgaccg gcagctggcg tgtgctcgga ttgcatcccc
     1021 agagggacaa gactatctaa agggaatggc tgccgctgga aactatgcct gggttaaccg
     1081 ctcgtctatg accttcttaa cccgtcaggc ttttgccaaa gtcttcaaca caacccctga
     1141 cgacctggac ctgcatgtga tttatgatgt ttctcacaac atcgccaaag tggagcagca
     1201 cgtggtagac ggaaaggagc ggacgctgtt ggtgcacagg aaagggtcca cccgagcttt
     1261 ccctcctcac catcccctca ttgctgttga ttaccagctc actggacaac cagtgcttat
     1321 cggtggcacc atggggacct gtagttatgt tctgactggc actgaacaag gcatgactga
     1381 gacctttgga acaacctgtc atggagcggg ccgtgctttg tccagagcaa aatcacgtcg
     1441 taatttagat ttccaagatg tcttagacaa gctggcagac atgggaatcg ccatccgggt
     1501 tgcgtccccc aagctggtta tggaagaggc tccagaatca tataagaatg tgacagacgt
     1561 cgtgaacact tgccatgatg ctgggatcag caagaaggcc attaaactga gaccaattgc
     1621 tgttattaaa ggatagatcc aagactgtca gcatctctga ggtgcccatg gactgagatc
     1681 cctaagacac ccactcgagg cctgacaaga tccgaatggc agagctgtcg ctatgcacac
     1741 cacaatggct ggtggagagg ctgctgtcac acacaggttg gaagatagcc ttccagaaga
     1801 catgtatctc tgttgggaac agtcaagtga gcctgtccca cggggttctg tgactcttgg
     1861 ggtgtgggaa gggatcaaga aatgccctac ttggtcatac aagtctgtaa tcagcagagt
     1921 ggacttcttt acaccaagct ctgtagccca gtaggtatca tgaaaacatt ctattaaata
     1981 ggtttttgaa tgtttc
//
