LOCUS       NM_124072               4547 bp    mRNA    linear   PLN 20-OCT-2022
DEFINITION  Arabidopsis thaliana RNA helicase (LBA1), mRNA.
ACCESSION   NM_124072
VERSION     NM_124072.3
DBLINK      BioProject: PRJNA116
            BioSample: SAMN03081427
KEYWORDS    RefSeq.
SOURCE      Arabidopsis thaliana (thale cress)
  ORGANISM  Arabidopsis thaliana
            Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
            Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae;
            Pentapetalae; rosids; malvids; Brassicales; Brassicaceae;
            Camelineae; Arabidopsis.
REFERENCE   1  (bases 1 to 4547)
  AUTHORS   Tabata,S., Kaneko,T., Nakamura,Y., Kotani,H., Kato,T., Asamizu,E.,
            Miyajima,N., Sasamoto,S., Kimura,T., Hosouchi,T., Kawashima,K.,
            Kohara,M., Matsumoto,M., Matsuno,A., Muraki,A., Nakayama,S.,
            Nakazaki,N., Naruo,K., Okumura,S., Shinpo,S., Takeuchi,C., Wada,T.,
            Watanabe,A., Yamada,M., Yasuda,M., Sato,S., de la Bastide,M.,
            Huang,E., Spiegel,L., Gnoj,L., O'Shaughnessy,A., Preston,R.,
            Habermann,K., Murray,J., Johnson,D., Rohlfing,T., Nelson,J.,
            Stoneking,T., Pepin,K., Spieth,J., Sekhon,M., Armstrong,J.,
            Becker,M., Belter,E., Cordum,H., Cordes,M., Courtney,L.,
            Courtney,W., Dante,M., Du,H., Edwards,J., Fryman,J., Haakensen,B.,
            Lamar,E., Latreille,P., Leonard,S., Meyer,R., Mulvaney,E.,
            Ozersky,P., Riley,A., Strowmatt,C., Wagner-McPherson,C., Wollam,A.,
            Yoakum,M., Bell,M., Dedhia,N., Parnell,L., Shah,R., Rodriguez,M.,
            See,L.H., Vil,D., Baker,J., Kirchoff,K., Toth,K., King,L.,
            Bahret,A., Miller,B., Marra,M., Martienssen,R., McCombie,W.R.,
            Wilson,R.K., Murphy,G., Bancroft,I., Volckaert,G., Wambutt,R.,
            Dusterhoft,A., Stiekema,W., Pohl,T., Entian,K.D., Terryn,N.,
            Hartley,N., Bent,E., Johnson,S., Langham,S.A., McCullagh,B.,
            Robben,J., Grymonprez,B., Zimmermann,W., Ramsperger,U., Wedler,H.,
            Balke,K., Wedler,E., Peters,S., van Staveren,M., Dirkse,W.,
            Mooijman,P., Lankhorst,R.K., Weitzenegger,T., Bothe,G., Rose,M.,
            Hauf,J., Berneiser,S., Hempel,S., Feldpausch,M., Lamberth,S.,
            Villarroel,R., Gielen,J., Ardiles,W., Bents,O., Lemcke,K.,
            Kolesov,G., Mayer,K., Rudd,S., Schoof,H., Schueller,C.,
            Zaccaria,P., Mewes,H.W., Bevan,M. and Fransz,P.
  CONSRTM   Kazusa DNA Research Institute; Cold Spring Harbor and Washington
            University in St Louis Sequencing Consortium; European Union
            Arabidopsis Genome Sequencing Consortium
  TITLE     Sequence and analysis of chromosome 5 of the plant Arabidopsis
            thaliana
  JOURNAL   Nature 408 (6814), 823-826 (2000)
   PUBMED   11130714
REFERENCE   2  (bases 1 to 4547)
  CONSRTM   NCBI Genome Project
  TITLE     Direct Submission
  JOURNAL   Submitted (19-OCT-2022) National Center for Biotechnology
            Information, NIH, Bethesda, MD 20894, USA
REFERENCE   3  (bases 1 to 4547)
  AUTHORS   Krishnakumar,V., Cheng,C.-Y., Chan,A.P., Schobel,S., Kim,M.,
            Ferlanti,E.S., Belyaeva,I., Rosen,B.D., Micklem,G., Miller,J.R.,
            Vaughn,M. and Town,C.D.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-MAY-2016) Plant Genomics, J. Craig Venter Institute,
            9704 Medical Center Dr, Rockville, MD 20850, USA
  REMARK    Protein update by submitter
REFERENCE   4  (bases 1 to 4547)
  AUTHORS   Swarbreck,D., Lamesch,P., Wilks,C. and Huala,E.
  CONSRTM   TAIR
  TITLE     Direct Submission
  JOURNAL   Submitted (18-FEB-2011) Department of Plant Biology, Carnegie
            Institution, 260 Panama Street, Stanford, CA, USA
COMMENT     REVIEWED REFSEQ: This record has been curated by TAIR and Araport.
            This record is derived from an annotated genomic sequence
            (NC_003076).
            
            On Sep 12, 2016 this sequence version replaced NM_124072.2.
FEATURES             Location/Qualifiers
     source          1..4547
                     /organism="Arabidopsis thaliana"
                     /mol_type="mRNA"
                     /db_xref="taxon:3702"
                     /chromosome="5"
                     /ecotype="Columbia"
     gene            1..4547
                     /gene="LBA1"
                     /locus_tag="AT5G47010"
                     /gene_synonym="ATUPF1; LOW-LEVEL BETA-AMYLASE 1; MQD22.15;
                     MQD22_15; UPF1"
                     /note="Required for nonsense-mediated mRNA decay. Involved
                     in RNA interference. lba1 mutants has reduced
                     sugar-induced expression of Atb- amylase, is
                     hypersensitive to glucose and abscisic acid and resistant
                     to mannose, and shows early flowering, short day-sensitive
                     growth, and seed germination phenotypes."
                     /db_xref="Araport:AT5G47010"
                     /db_xref="GeneID:834747"
                     /db_xref="TAIR:AT5G47010"
     CDS             186..3950
                     /gene="LBA1"
                     /locus_tag="AT5G47010"
                     /gene_synonym="ATUPF1; LOW-LEVEL BETA-AMYLASE 1; MQD22.15;
                     MQD22_15; UPF1"
                     /inference="Similar to RNA sequence,
                     EST:INSD:ES203269.1,INSD:EL138262.1,INSD:EL311317.1,
                     INSD:EG499455.1,INSD:EG525461.1,INSD:AV546416.1,
                     INSD:ES177958.1,INSD:AV546188.1,INSD:AV545909.1,
                     INSD:BP635121.1,INSD:AV546182.1,INSD:AI994922.1,
                     INSD:EL106236.1,INSD:ES206740.1,INSD:ES015996.1,
                     INSD:AV551650.1,INSD:AV545805.1,INSD:BP611793.1,
                     INSD:BP797241.1,INSD:W43593.1,INSD:AV545830.1,
                     INSD:AV551523.1,INSD:ES088887.1,INSD:EH898100.1,
                     INSD:BP643776.1,INSD:ES124254.1,INSD:EL193706.1,
                     INSD:DR351267.1,INSD:T44378.1,INSD:AV545800.1,
                     INSD:ES007894.1,INSD:EH970935.1,INSD:ES042198.1,
                     INSD:EH851103.1,INSD:EH883336.1,INSD:EG499456.1,
                     INSD:AV546008.1,INSD:AV530410.1,INSD:EL256323.1,
                     INSD:AV539244.1,INSD:EH798981.1,INSD:BP806608.1,
                     INSD:AV554786.1,INSD:AV545820.1,INSD:AU228948.1,
                     INSD:ES009612.1,INSD:ES080981.1,INSD:AA395276.1"
                     /inference="similar to RNA sequence, mRNA:INSD:AF484122.1"
                     /note="LOW-LEVEL BETA-AMYLASE 1 (LBA1); FUNCTIONS IN: in 6
                     functions; INVOLVED IN: sugar mediated signaling pathway,
                     RNA interference, nuclear-transcribed mRNA catabolic
                     process, nonsense-mediated decay, response to sucrose
                     stimulus; LOCATED IN: plasma membrane; EXPRESSED IN: 23
                     plant structures; EXPRESSED DURING: 13 growth stages;
                     CONTAINS InterPro DOMAIN/s: Restriction endonuclease, type
                     I, R subunit/Type III, Res subunit (InterPro:IPR006935),
                     Helicase, superfamily 1/2, ATP-binding domain
                     (InterPro:IPR014021), RNA helicase UPF1, UPF2-interacting
                     domain (InterPro:IPR018999); BEST Arabidopsis thaliana
                     protein match is: DNA-binding protein, putative
                     (TAIR:AT2G03270.1); Has 9640 Blast hits to 8330 proteins
                     in 1330 species: Archae - 182; Bacteria - 2840; Metazoa -
                     3001; Fungi - 1369; Plants - 807; Viruses - 148; Other
                     Eukaryotes - 1293 (source: NCBI BLink)."
                     /codon_start=1
                     /product="RNA helicase"
                     /protein_id="NP_199512.2"
                     /db_xref="GeneID:834747"
                     /db_xref="TAIR:AT5G47010"
                     /db_xref="Araport:AT5G47010"
                     /translation="

MDSQQSDLFDTASQPDTVADEYTFLEFNTQGDSEFDYQDFGSPTAWPTPSDSISIADVADRGEGGAAADHHSEASSPSSLSAGAGNGAKVGRGGVGGSGGVSSSSQVDALAAGVGNLNFEETGDDDGFDYGKNDFTEHACKYCGISNPACVVRCNVASCRKWFCNSRGNTSGSHIVNHLVRAKHKEVCLHRDSPLGETILECYNCGCRNVFLLGFISAKTDSVVVLLCRDPCLNVNALKDMNWDLSQWCPLIDDRCFLPWLVKVPSEQEQLRARQISAQQINKIEELWKTNPDATLEDLEKPGVDDEPQPVQPKYEDAYQYQNVFAPLIKLEADYDKMMKESQSKENLTVRWDIGLNKKRVAYFVFPKEENELRLVPGDELRLRYSGDAVHPSWQSVGHVIKLTAQEEVALELRANQGVPIDVNHGFSVDFVWKSTSFDRMQGAMKNFAVDETSVSGYIYHQLLGHEVEAQMVRNTLPRRFGVPGLPELNASQVNAVKSVLQKPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEYLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKNLKRATEREITQSADVICCTCVGAADLRLSNFRFRQVLIDESTQATEPECLIPLVLGVKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVTLGIKPIRLQVQYRMHPALSEFPSNSFYEGTLQNGVTIIERQTTGIDFPWPVPNRPMFFYVQLGQEEISASGTSYLNRTEAANVEKLVTAFLKSGVVPSQIGVITPYEGQRAYIVNYMARNGSLRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQGIGFLNDPRRLNVALTRARYGIVILGNPKVLSKQPLWNGLLTHYKEHECLVEGPLNNLKQSMVQFQKPRKIYNDRRLFYGGGAGMIGNDNFGSGNPNADRRGSRGRAGGSYLPSGPPNGARPGLHPAGYPIPRVPLSPFPGGPPSQPYAIPTRGPVGAVPHAPQPGNHGFGAGRGTSVGGHLPHQQATQHNVGTIGPSLNFPLDSPNSQPSPGGPLSQPGYGSQAFRDGFSMGGISQDFLADDIKSQGSHDPYNMADFATQASPGGFAVDYATQGAHGAFPGNFMNQNSQGGYSRFSGINDFMSQEYMAHGGQGLFTQAGFIDSSQDDGQQNPYGVNNPNLQSQGLPNSLYSQPFAHYNTQPLNLSGPQQSQPNQSSQNPKHPYNG"

     misc_feature    675..2972
                     /gene="LBA1"
                     /locus_tag="AT5G47010"
                     /gene_synonym="ATUPF1; LOW-LEVEL BETA-AMYLASE 1; MQD22.15;
                     MQD22_15; UPF1"
                     /note="Superfamily I DNA and/or RNA helicase [Replication,
                     recombination and repair]; Region: DNA2; COG1112"
                     /db_xref="CDD:224037"
     misc_feature    1647..2354
                     /gene="LBA1"
                     /locus_tag="AT5G47010"
                     /gene_synonym="ATUPF1; LOW-LEVEL BETA-AMYLASE 1; MQD22.15;
                     MQD22_15; UPF1"
                     /note="DEXXQ-box helicase domain of UPF1; Region:
                     DEXXQc_UPF1; cd18039"
                     /db_xref="CDD:350797"
     misc_feature    order(1647..1655,1662..1664,1719..1739,2238..2240,
                     2349..2354)
                     /gene="LBA1"
                     /locus_tag="AT5G47010"
                     /gene_synonym="ATUPF1; LOW-LEVEL BETA-AMYLASE 1; MQD22.15;
                     MQD22_15; UPF1"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:350797"
     misc_feature    order(1803..1811,1875..1886,2043..2045,2091..2093,
                     2097..2099,2250..2252,2256..2258)
                     /gene="LBA1"
                     /locus_tag="AT5G47010"
                     /gene_synonym="ATUPF1; LOW-LEVEL BETA-AMYLASE 1; MQD22.15;
                     MQD22_15; UPF1"
                     /note="RNA binding site [nucleotide binding]; other site"
                     /db_xref="CDD:350797"
     misc_feature    <3126..3461
                     /gene="LBA1"
                     /locus_tag="AT5G47010"
                     /gene_synonym="ATUPF1; LOW-LEVEL BETA-AMYLASE 1; MQD22.15;
                     MQD22_15; UPF1"
                     /note="Proline-rich; Region: Pro-rich; pfam15240"
                     /db_xref="CDD:434562"
ORIGIN      

ctcacgcgcccctcttttcttcttcattgacacggacattcgtttccaattctctctaatgtttcactaaagcgcatacataaccctaaccctaactctctcgtactgcacaaaaaaaaaaaaaaaattgaagaagagcgatacgatcgtaaccagggagcttgatttctcccctgatttttctaatggattctcaacagagcgatctctttgacaccgcatcgcagccggacacggtggccgacgagtatacctttttggaattcaatactcaaggcgattcagagttcgattaccaggattttggatcgccgacggcatggccgacaccgtctgattctatttccatcgctgacgttgccgatcgtggtgaaggaggagctgccgcggatcatcattctgaggcttcgtcaccttcgtccctctctgccggtgccgggaatggtgcgaaagtgggacgcggtggagttggtggaagtggtggtgttagtagtagtagtcaggttgatgcattggccgctggtgtgggaaatttgaactttgaagagactggtgatgatgatggttttgattatggtaaaaatgatttcacggagcacgcttgtaagtattgtggtatctcgaacccagcttgcgtcgttaggtgtaatgtggcttcttgtagaaagtggttctgcaattcaaggggaaacacctcaggctctcatattgtgaatcacctggtgcgagcaaaacacaaggaagtttgtctccatagagacagtccactaggggaaacaattctcgaatgctacaactgtgggtgtcggaatgtctttcttctcggtttcatctcagcaaagacagatagtgttgtcgtccttctctgtagagatccttgtctaaatgtaaatgccctgaaggatatgaactgggacctaagtcagtggtgtcccttgattgacgacagatgtttcctcccctggcttgttaaggtcccatcagagcaagaacagctaagggcacgccaaattagcgcacagcaaataaacaagatagaggaattatggaagacaaatccggatgctactcttgaagaccttgaaaaacctggtgtagatgatgaacctcagcctgttcaacctaagtatgaagatgcgtaccagtatcaaaatgtgtttgcacctctaatcaaactcgaagcagactatgacaagatgatgaaagagtctcaaagcaaggaaaacctcactgttcggtgggatattggtcttaacaagaagcgtgttgcatacttcgtcttcccaaaggaggaaaatgaattgcgattggtaccgggtgatgaactacgtctgcggtactcgggagatgctgttcatccatcctggcagtcagttggacatgtgatcaagctaacggcgcaagaggaggttgctcttgaactccgagctaatcagggagttccgattgacgtaaatcatggattcagtgttgattttgtttggaaaagtacaagctttgatcgaatgcagggagcaatgaagaattttgctgtagatgaaacaagtgtgagtggttatatctaccatcagttattgggacatgaagttgaggcccagatggttcgtaacacactacctcgacgttttggggtacctggtcttccagaactgaatgcatctcaggttaatgcggtgaaaagtgtccttcagaagcccatcagcttgatccaaggtccacctggcacaggcaaaactgtgacttctgcagcaattgtgtatcacatggcaaaacagggccagggacaggttctcgtttgtgccccaagtaatgttgctgtggaccaactagctgaaaaaattagtgctactgggttaaaggttgttcgcctttgcgcaaaatcaagggaagctgtaagttctcctgtagagtatttgacccttcactaccaggtaagacatcttgacacatctgaaaagagcgaactgcataagttgcagcagttgaaagatgaacaaggtgagctgtcaagcagtgatgaaaagaaatacaaaaatttgaaaagagcgacagaacgcgagataacccagagtgctgatgtcatatgctgcacatgtgttggtgctgctgatcttcggttgtcaaactttagatttagacaggtacttattgatgagtctactcaagcaacagaacctgagtgccttatccctttggtccttggagtaaaacaggttgttcttgttggtgatcattgtcagcttggccccgtcattatgtgcaaaaaagcagctcgtgctggcttggcacagtctctctttgaacgacttgtgactcttggtattaaaccaatcagattgcaggttcaatatcgtatgcatccagctttgtccgagtttccatccaacagcttctatgaaggaactctacagaatggagtcacaattattgaaaggcaaacaacagggattgatttcccgtggcctgttcctaaccggcccatgtttttctatgttcagctgggacaagaggagatcagtgctagtggaacatcatatcttaatagaactgaggctgctaatgtggagaaacttgtgactgctttcttaaagagtggagttgtccccagtcagattggagttataactccatatgagggacagagggcatacattgttaattacatggcaagaaatggttctctccgacagcaactgtacaaggaaattgaggttgccagtgttgattcttttcaaggaagggaaaaagattacatcatattgtcctgtgtgagaagtaatgagcatcagggcattggattccttaatgatccacggaggcttaatgttgcacttacgcgagctcgttatggaattgttattcttggaaacccaaaagttcttagtaaacagcctctgtggaatggattgttgacacattacaaggaacatgagtgcttggtcgagggacctcttaataatctaaagcagagcatggtacagtttcagaaaccaagaaagatttacaatgatcggagactattttatggtggtggagctggcatgattggaaatgataattttggttcgggtaaccctaatgctgacagaagaggcagtcgaggaagggctggtggttcctatcttccttctggcccacctaatggtgctagacctggactacacccggcagggtacccgatacctagggttccactttcaccctttcctggtggtcctccttctcagccatacgctattccaactcgtggacctgttggtgctgttcctcatgctcctcaacctggaaaccatggttttggagctggtcgtggaacttcagttggggggcaccttccgcaccaacaagccacccaacataatgttggaactattggccctagtttaaactttccccttgatagtccgaatagccagccttcacctggtggtccgctatcccaacctggatatggtagccaagcgttcagggatggattttctatgggtggaatatctcaggatttcttggctgatgatatcaagagccagggatctcatgatccttacaacatggccgactttgctacacaggcctcaccgggtggatttgctgttgattatgccacacaaggagcacatggggcgtttcctggaaactttatgaatcagaattctcaaggcggttattctcgtttcagcggaattaatgatttcatgtctcaggagtatatggcacatggaggtcaaggtcttttcacccaagctggctttatcgactcatcccaggatgatggacagcagaatccttatggtgtgaacaatccaaatcttcagtctcagggtctcccaaattcgctctactcgcagccattcgcacactacaacacacagccactaaacctttcaggcccacagcaatctcaacctaaccagagctcacaaaacccaaaacatccttacaatggctgagggtgagaaagacaaaacttggatgcaacgggtttataaactcttttgcaaattcaccggcttggttccatgctgttcacggctccaaacaaacatctggtgacttccgggtgcttgaaagatacacgcctttctggctcgcttaacgcagcaaacaggtaaatggttatgcaaagaaacgggtacctaagtagcctggggaaaaaagtcttcggtccgtaaatccttttggcttatatgttttgtttttgccttgtattattaatatacgctcatatgctctatattattatagtcagatatctgaagcctacccatatttaaaattggtggtggtgtttaatggtgatattgatatgatttacaagttcttttgctttatttggtttttatttttttcacggtctgaattcatgatttgtgtgcaagttttggtatcattggcttatgggcttgtccaatctgaaatttgttttggatttctaagtttcgttaaaactgattcgacttgaattttatgttctcaaaatatctctgagttgaagaatttcataaagattatatttcctaggtttagccgacatgattttgttgtcc

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