LOCUS       NM_003729               2526 bp    mRNA    linear   PRI 21-SEP-2024
DEFINITION  Homo sapiens RNA 3'-terminal phosphate cyclase (RTCA), transcript
            variant 2, mRNA.
ACCESSION   NM_003729
VERSION     NM_003729.4
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 2526)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   2  (bases 1 to 2526)
  AUTHORS   Unlu,I., Lu,Y. and Wang,X.
  TITLE     The cyclic phosphodiesterase CNP and RNA cyclase RtcA fine-tune
            noncanonical XBP1 splicing during ER stress
  JOURNAL   J Biol Chem 293 (50), 19365-19376 (2018)
   PUBMED   30355738
  REMARK    GeneRIF: CNP and RtcA fine-tune XBP1 output during ER stress
REFERENCE   3  (bases 1 to 2526)
  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   4  (bases 1 to 2526)
  AUTHORS   Tanaka,N. and Shuman,S.
  TITLE     Structure-activity relationships in human RNA 3'-phosphate cyclase
  JOURNAL   RNA 15 (10), 1865-1874 (2009)
   PUBMED   19690099
  REMARK    GeneRIF: Rtc1 forms a stable binary complex with a 3'-phosphate
            terminated RNA, but not with an identical 3'-OH terminated RNA
REFERENCE   5  (bases 1 to 2526)
  AUTHORS   Genschik,P., Billy,E., Swianiewicz,M. and Filipowicz,W.
  TITLE     The human RNA 3'-terminal phosphate cyclase is a member of a new
            family of proteins conserved in Eucarya, Bacteria and Archaea
  JOURNAL   EMBO J 16 (10), 2955-2967 (1997)
   PUBMED   9184239
REFERENCE   6  (bases 1 to 2526)
  AUTHORS   Filipowicz,W. and Vicente,O.
  TITLE     RNA 3'-terminal phosphate cyclase from HeLa cells
  JOURNAL   Methods Enzymol 181, 499-510 (1990)
   PUBMED   2199762
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DA361597.1, Y11651.1,
            CF141820.1, CA437545.1, AL663111.8, DB576272.1 and AI587400.1.
            
            On Feb 27, 2020 this sequence version replaced NM_003729.3.
            
            Summary: This gene encodes a member of the RNA 3'-phosphate cyclase
            family. The encoded protein plays a role in RNA metabolism by
            catalyzing the ATP-dependent conversion of the 3'-phosphate of RNA
            substrates to a 2',3'-cyclic phosphodiester. Alternatively spliced
            transcript variants encoding multiple isoforms have been observed
            for this gene. [provided by RefSeq, Feb 2012].
            
            Transcript Variant: This variant (2) lacks an alternate in-frame
            exon compared to variant 1. The resulting isoform (b) has the same
            N- and C-termini but is shorter compared to isoform a.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR1660809.50211.1,
                                           SRR3476690.885722.1 [ECO:0000332]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000370128.9/ ENSP00000359146.4
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-561               DA361597.1         1-561
            562-1528            Y11651.1           572-1538
            1529-1694           CF141820.1         157-322
            1695-1963           CA437545.1         9-277
            1964-1964           AL663111.8         15515-15515
            1965-2269           CA437545.1         279-583
            2270-2355           DB576272.1         240-325
            2356-2356           AL663111.8         15907-15907
            2357-2522           DB576272.1         327-492
            2523-2526           AI587400.1         12-15               c
FEATURES             Location/Qualifiers
     source          1..2526
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="1"
                     /map="1p21.2"
     gene            1..2526
                     /gene="RTCA"
                     /gene_synonym="RPC; RTC1; RTCD1"
                     /note="RNA 3'-terminal phosphate cyclase"
                     /db_xref="GeneID:8634"
                     /db_xref="HGNC:HGNC:17981"
                     /db_xref="MIM:611286"
     exon            1..205
                     /gene="RTCA"
                     /gene_synonym="RPC; RTC1; RTCD1"
                     /inference="alignment:Splign:2.1.0"
     CDS             161..1261
                     /gene="RTCA"
                     /gene_synonym="RPC; RTC1; RTCD1"
                     /EC_number="6.5.1.4"
                     /note="isoform b is encoded by transcript variant 2; RTC
                     domain-containing protein 1; RNA terminal phosphate
                     cyclase domain-containing protein 1; RNA terminal
                     phosphate cyclase domain 1"
                     /codon_start=1
                     /product="RNA 3'-terminal phosphate cyclase isoform b"
                     /protein_id="NP_003720.1"
                     /db_xref="CCDS:CCDS768.1"
                     /db_xref="GeneID:8634"
                     /db_xref="HGNC:HGNC:17981"
                     /db_xref="MIM:611286"
                     /translation="MAGPRVEVDGSIMEGGGQILRVSTALSCLLGLPLRVQKIRAGRS
                     TPGLRPQHLSGLEMIRDLCDGQLEGAEIGSTEITFTPEKIKGGIHTADTKTAGSVCLL
                     MQVSMPCVLFAASPSELHLKGGTNAEMAPQIDYTVMVFKPIVEKFGFIFNCDIKTRGY
                     YPKGGGEVIVRMSPVKQLNPINLTERGCVTKIYGRAFVAGVLPFKVAKDMAAAAVRCI
                     RKEIRDLYVNIQPVQEPKDQAFGNGNGIIIIAETSTGCLFAGSSLGKRGVNADKVGIE
                     AAEMLLANLRHGGTVDEYLQDQLIVFMALANGVSRIKTGPVTLHTQTAIHFAEQIAKA
                     KFIVKKSEDEEDAAKDTYIIECQGIGMTNPNL"
     exon            206..306
                     /gene="RTCA"
                     /gene_synonym="RPC; RTC1; RTCD1"
                     /inference="alignment:Splign:2.1.0"
     exon            307..450
                     /gene="RTCA"
                     /gene_synonym="RPC; RTC1; RTCD1"
                     /inference="alignment:Splign:2.1.0"
     exon            451..574
                     /gene="RTCA"
                     /gene_synonym="RPC; RTC1; RTCD1"
                     /inference="alignment:Splign:2.1.0"
     exon            575..633
                     /gene="RTCA"
                     /gene_synonym="RPC; RTC1; RTCD1"
                     /inference="alignment:Splign:2.1.0"
     exon            634..775
                     /gene="RTCA"
                     /gene_synonym="RPC; RTC1; RTCD1"
                     /inference="alignment:Splign:2.1.0"
     exon            776..900
                     /gene="RTCA"
                     /gene_synonym="RPC; RTC1; RTCD1"
                     /inference="alignment:Splign:2.1.0"
     exon            901..959
                     /gene="RTCA"
                     /gene_synonym="RPC; RTC1; RTCD1"
                     /inference="alignment:Splign:2.1.0"
     exon            960..1054
                     /gene="RTCA"
                     /gene_synonym="RPC; RTC1; RTCD1"
                     /inference="alignment:Splign:2.1.0"
     exon            1055..1159
                     /gene="RTCA"
                     /gene_synonym="RPC; RTC1; RTCD1"
                     /inference="alignment:Splign:2.1.0"
     exon            1160..2526
                     /gene="RTCA"
                     /gene_synonym="RPC; RTC1; RTCD1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1506..1511
                     /regulatory_class="polyA_signal_sequence"
                     /gene="RTCA"
                     /gene_synonym="RPC; RTC1; RTCD1"
                     /note="hexamer: AATAAA"
     polyA_site      1529
                     /gene="RTCA"
                     /gene_synonym="RPC; RTC1; RTCD1"
                     /note="major polyA site"
     regulatory      2501..2506
                     /regulatory_class="polyA_signal_sequence"
                     /gene="RTCA"
                     /gene_synonym="RPC; RTC1; RTCD1"
                     /note="hexamer: AATAAA"
     polyA_site      2526
                     /gene="RTCA"
                     /gene_synonym="RPC; RTC1; RTCD1"
ORIGIN      
        1 agtgtcccga gaggcgccgc ttcttccgct ttctcgtcag gctcctgcgc cccaggcatg
       61 aaccaaggtt tctgaactac tgggcgggag ccaacgtctc ttctttctcc cgctctggcg
      121 gaggctttgt cgctgcgggc tgggccccag ggtgtccccc atggcggggc cgcgggtgga
      181 ggtcgatggc agcatcatgg aagggggcgg ccagatcctg agagtctcta cggccttgag
      241 ctgtctccta ggcctcccct tgcgggtgca gaagatccga gccggccgga gcacgccagg
      301 cctgaggcct caacatttat ctggactgga aatgattcga gatttgtgtg atgggcaact
      361 ggagggggca gaaattggct caacagaaat aacctttaca ccagagaaga tcaaaggtgg
      421 aatccacaca gcagatacca agacagcagg gagtgtgtgc ctcttgatgc aggtctcaat
      481 gccgtgtgtt ctctttgctg cttctccatc agaacttcat ttgaaaggtg gaactaatgc
      541 tgaaatggca ccacagatcg attatacagt gatggtcttc aagccaattg ttgaaaaatt
      601 tggtttcata tttaattgtg acattaaaac aaggggatat tacccaaaag ggggtggtga
      661 agtgattgtt cgaatgtcac cagttaaaca attgaaccct ataaatttaa ctgagcgtgg
      721 ctgtgtgact aagatatatg gaagagcttt cgttgctggt gttttgccat ttaaagtagc
      781 aaaagatatg gcagcggcag cagttagatg catcagaaag gagatccggg atttgtatgt
      841 taacatccag cctgttcaag aacctaaaga ccaagcattt ggcaatggaa atggaataat
      901 aattattgct gagacctcca ctggctgttt gtttgctgga tcatcgcttg gtaaacgagg
      961 tgtaaatgca gacaaagttg gaattgaagc tgccgaaatg ctattagcaa atcttagaca
     1021 tggtggtact gtggatgagt atctgcaaga ccagctgatt gttttcatgg cattagccaa
     1081 tggagtttcc agaataaaaa caggaccagt tacactccat acgcaaaccg cgatacattt
     1141 tgctgaacaa atagcaaagg ctaaatttat tgtgaagaaa tcagaagatg aagaagacgc
     1201 cgctaaagat acttatatta ttgaatgcca aggaattggg atgacaaatc caaatctata
     1261 gagtatttgc ctcttaaatg atacctcatt gatatattgc actatttcat aaatactata
     1321 aaataatgac taggaagtaa cttattaaag gctatgactt aaatttgaag atgaagtaca
     1381 gtgttctagg tttgctgaga aggcttcatt aaattaatct cactttgaat atctcctgag
     1441 agatggacaa tgaaatatca gttggtggat atgtgtgata gctgatttca atattgaagt
     1501 attgaaataa aatattcttt acacctgaag taaatacatt tttctttttt atgtaattaa
     1561 ttaaatcagg gatatagatt tgatctgtaa tttgggtata attctaatct ttgctgaaat
     1621 cacatctcaa gtataatgag gcaactttat gcaaatgtac ttgttgtgac aacaataaca
     1681 ttttcctttt tttttttttt ttttgagaca gtctcgttct gtcacccagg ctggggtgct
     1741 gtggtgtgat cttggctcac tgcaacctct gcctcccggg ttcaagcaat tctactgcct
     1801 cagcttcctg agtagttggt attacaccac catgcccagc taatttttgt atttttagta
     1861 gagacagggt ttcaccatat tggtcaggct ggtttcgaac tcctgacctc gtgatctgcc
     1921 cgcctcggcc tcccaaagtg gtgggattac aggcgtgagc cagtgcaccc ggcaacaata
     1981 acatttaata ggcattgtct cattctaatg atatatacct tctacctagt gggcactttg
     2041 tacatattta ttttttattt tatttattca ttttttttga gacagagtct cactctgtca
     2101 ccaagttgga gtgcagtggc acaatctcag ctcactgcaa cctccgcctt ccaggttgaa
     2161 gtgattctcc agcctcagcc tcccgagtag ctgggactcc aggcacgtac caccataccc
     2221 agataatttt tgcattttta gtagagacgg ggtttcacca tgttggctag gatggtctcc
     2281 atctcctgac ctcgtgatcc gcccaccttg gcctcccaaa gtgctgggat tacaggcatg
     2341 agccaccaca gctggtcgta aatatttttt gaatttgaat ctgttttgga agccaaatat
     2401 gttttggaag ccaaacaatt aagagaagta aaattttaac cctagtaggt ttcgcagatt
     2461 catccccaga tatgtttttg tttggcttgt gttattaaca aataaatgag tgtctttcaa
     2521 atggaa
//
