LOCUS       NM_001014057            1782 bp    mRNA    linear   ROD 23-MAR-2023
DEFINITION  Rattus norvegicus tRNA splicing endonuclease subunit 2 (Tsen2),
            mRNA.
ACCESSION   NM_001014057 XM_232279
VERSION     NM_001014057.2
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 1782)
  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   2  (bases 1 to 1782)
  AUTHORS   Weitzer S and Martinez J.
  TITLE     The human RNA kinase hClp1 is active on 3' transfer RNA exons and
            short interfering RNAs
  JOURNAL   Nature 447 (7141), 222-226 (2007)
   PUBMED   17495927
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JACYVU010000149.1.
            
            On Mar 26, 2021 this sequence version replaced NM_001014057.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC087631.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMD00132268, SAMD00132293
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-36                JACYVU010000149.1  925698-925733
            37-245              JACYVU010000149.1  929028-929236
            246-327             JACYVU010000149.1  931073-931154
            328-364             JACYVU010000149.1  936121-936157
            365-881             JACYVU010000149.1  940107-940623
            882-959             JACYVU010000149.1  941872-941949
            960-1010            JACYVU010000149.1  949136-949186
            1011-1149           JACYVU010000149.1  951937-952075
            1150-1186           JACYVU010000149.1  957836-957872
            1187-1298           JACYVU010000149.1  959137-959248
            1299-1388           JACYVU010000149.1  960052-960141
            1389-1782           JACYVU010000149.1  960671-961064
FEATURES             Location/Qualifiers
     source          1..1782
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="4"
                     /map="4q42"
     gene            1..1782
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /note="tRNA splicing endonuclease subunit 2"
                     /db_xref="GeneID:312649"
                     /db_xref="RGD:1309946"
     exon            1..36
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /inference="alignment:Splign:2.1.0"
     exon            37..245
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    51..53
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /note="upstream in-frame stop codon"
     CDS             57..1448
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /EC_number="4.6.1.16"
                     /note="tRNA-intron nuclease 2; tRNA-intron endonuclease
                     Sen2; TSEN2 tRNA splicing endonuclease subunit"
                     /codon_start=1
                     /product="tRNA-splicing endonuclease subunit Sen2"
                     /protein_id="NP_001014079.1"
                     /db_xref="GeneID:312649"
                     /db_xref="RGD:1309946"
                     /translation="

MAEAVFRAPKRKRRVYESYESPLPIPFSQDQSPRKEFRIFQAEMISNNVVVRGTEDMEQLYGKGYFGKGILSRSRPNFTISNPKLAARWKGVQTDMPIITSEKYQHRVEWARDFMRRQGHDESTVQKILTDYTEPLEPPYRERKGESPQHEPLSSKADSSLEGREGKDELSVTTGGAGQSDDLQGLNTHSDCRQEGPGHATLTVASPSSLNGHAIEDPEALSQIPCCSQEALGQQDDLWPEASSQIAGESRAAHEYVLIEEELCDVQEGAAPHDELLKRKRLVCRRNPYRIFEYLQLSLEEAFFLAYALGCLSIYYEKEPLTIVKLWQAFTAVQPTFRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRKGPPFYHASYSVIIELVDDNFEGSLRRPFSWKSLAALSRVSGNVSKELMLCYLIKPSTMTNEDMETPECMRRIQVQEVILSRWVSSRERSDQDEL"

     misc_feature    150..152
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /note="Phosphoserine.
                     /evidence=ECO:0007744|PubMed:22673903; propagated from
                     UniProtKB/Swiss-Prot (Q5M954.1); phosphorylation site"
     misc_feature    414..695
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /note="propagated from UniProtKB/Swiss-Prot (Q5M954.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    495..497
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /note="Phosphoserine.
                     /evidence=ECO:0007744|PubMed:22673903; propagated from
                     UniProtKB/Swiss-Prot (Q5M954.1); phosphorylation site"
     misc_feature    <891..1037
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /note="tRNA intron endonuclease, N-terminal domain;
                     Region: tRNA_int_endo_N; pfam02778"
                     /db_xref="CDD:397071"
     misc_feature    1065..1340
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /note="catalytic C-terminal domain of the tRNA-intron
                     lyase; Region: tRNA-intron_lyase_C; cd22363"
                     /db_xref="CDD:411767"
     misc_feature    order(1155..1157,1179..1181,1296..1298)
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /note="active site"
                     /db_xref="CDD:411767"
     misc_feature    1272..1274
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /note="Phosphoserine.
                     /evidence=ECO:0000250|UniProtKB:Q6P7W5; propagated from
                     UniProtKB/Swiss-Prot (Q5M954.1); phosphorylation site"
     misc_feature    1281..1283
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /note="Phosphoserine.
                     /evidence=ECO:0000250|UniProtKB:Q6P7W5; propagated from
                     UniProtKB/Swiss-Prot (Q5M954.1); phosphorylation site"
     misc_feature    1293..1295
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /note="Phosphoserine.
                     /evidence=ECO:0000250|UniProtKB:Q6P7W5; propagated from
                     UniProtKB/Swiss-Prot (Q5M954.1); phosphorylation site"
     exon            246..327
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /inference="alignment:Splign:2.1.0"
     exon            328..364
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /inference="alignment:Splign:2.1.0"
     exon            365..881
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /inference="alignment:Splign:2.1.0"
     exon            882..959
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /inference="alignment:Splign:2.1.0"
     exon            960..1010
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /inference="alignment:Splign:2.1.0"
     exon            1011..1149
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /inference="alignment:Splign:2.1.0"
     exon            1150..1186
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /inference="alignment:Splign:2.1.0"
     exon            1187..1298
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /inference="alignment:Splign:2.1.0"
     exon            1299..1388
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /inference="alignment:Splign:2.1.0"
     exon            1389..1782
                     /gene="Tsen2"
                     /gene_synonym="RGD1309946"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

ttgccgggtaaccgtgggcgcgcgtggccgggtaagagacctgttatccttgaagaatggcagaggcagtcttccgtgctccaaagaggaaaaggagagtgtacgagagttacgagtcaccgctgcccatcccctttagtcaggaccaaagtcccaggaaggaattccgaatattccaggctgaaatgattagcaacaatgtggtggtgaggggcacagaggacatggagcagctgtatgggaagggttactttggaaaggggatcctttcaagaagtcgtccgaacttcacaatctccaatcccaagctggctgccagatggaaaggtgtgcagacagacatgcctataatcacctcagagaagtatcagcaccgagtggaatgggccagggatttcatgcggaggcagggccatgatgagagcactgtgcagaagatccttacggactacacagaaccattggagcctccttacagggagaggaaaggagagagcccacagcatgaacccctgagctccaaggccgactcctccctggaaggcagagagggaaaggatgaactttctgtgaccaccggaggtgctggacaatcagatgacctgcagggcctcaacacacactcagactgccggcaggaggggcctggccatgccacactcactgtggctagtccttctagccttaatgggcatgcgatagaggaccccgaggctctgtcccagatcccctgctgtagccaggaagccctcggtcagcaggatgacctttggcctgaagccagcagccagatagcaggagagagtagggctgctcacgagtatgtgctcatagaggaagagctgtgtgatgtccaggagggggcagcaccacatgacgagttgctgaaaagaaagagacttgtgtgcagaaggaacccatacaggatctttgagtatctacagctcagcctagaagaggctttcttcctggcatacgccctgggatgtttaagtatctactatgagaaggagcctttgaccatagtgaagctctggcaagccttcactgcagtccagcccaccttcaggactacctacatggcctaccactacttccgaagcaaaggctgggtgcccaaagtggggctcaagtacggaacagatctgttgctgtatcggaaaggccctccattttaccatgcaagctactctgtcatcattgagctcgtggatgacaactttgaagggtccctccgaaggcctttcagctggaagtcactggccgccttgagcagagtctcagggaacgtctcaaaggagctgatgctgtgttacttgattaagccctctaccatgactaacgaagacatggagaccccagaatgcatgaggaggattcaagttcaggaggtgattctcagccgatgggtgtcttcccgagagagaagtgaccaagatgagctttgacctttcaatcccagagtccacagttcaccatcagcctgccctaaaggagcattagcgcatttggggatcacaggaccccgtgctctgttgctttaatagagaaatctactcctgtagctcagcccacccaaggacttcaaccaattacccacgtgactggaaacccattgacggtttggaaaccttgaaacgtgactggtgcatcctcagtgaactccttgtttgacaggttggtgcattgaacacagaactatgtagtactgactattaaagatgcatctcgctttggagaaatcttataaaataaaaataagcagtggggtttttgagagaa

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