2024-09-28 09:28:18, GGRNA.v2 : RefSeq release 225 (Jul, 2024)
LOCUS NM_127193 3104 bp mRNA linear PLN 20-OCT-2022 DEFINITION Arabidopsis thaliana SNF2 domain-containing protein / helicase domain-containing protein (DRD1), mRNA. ACCESSION NM_127193 VERSION NM_127193.2 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 3104) AUTHORS Lin,X., Kaul,S., Rounsley,S., Shea,T.P., Benito,M.I., Town,C.D., Fujii,C.Y., Mason,T., Bowman,C.L., Barnstead,M., Feldblyum,T.V., Buell,C.R., Ketchum,K.A., Lee,J., Ronning,C.M., Koo,H.L., Moffat,K.S., Cronin,L.A., Shen,M., Pai,G., Van Aken,S., Umayam,L., Tallon,L.J., Gill,J.E., Adams,M.D., Carrera,A.J., Creasy,T.H., Goodman,H.M., Somerville,C.R., Copenhaver,G.P., Preuss,D., Nierman,W.C., White,O., Eisen,J.A., Salzberg,S.L., Fraser,C.M. and Venter,J.C. TITLE Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana JOURNAL Nature 402 (6763), 761-768 (1999) PUBMED 10617197 REFERENCE 2 (bases 1 to 3104) 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 3104) 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 3104) 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_003071). On May 26, 2011 this sequence version replaced NM_127193.1. FEATURES Location/Qualifiers source 1..3104 /organism="Arabidopsis thaliana" /mol_type="mRNA" /db_xref="taxon:3702" /chromosome="2" /ecotype="Columbia" gene 1..3104 /gene="DRD1" /locus_tag="AT2G16390" /gene_synonym="CHR35; DEFECTIVE IN MERISTEM SILENCING 1; DEFECTIVE IN RNA-DIRECTED DNA METHYLATION 1; DMS1; F16F14.11; F16F14_11" /note="Putative chromatin remodeling protein, member of a plant-specific subfamily of SWI2/SNF2-like proteins. Mutations nearly eliminate non-CpG methylation at a target promoter but do not affect rDNA or centromere methylation. Cooperates with PolIVb to facilitate RNA-directed de novo methylation and silencing of homologous DNA. Endogenous targets include intergenic regions near retrotransposon LTRs or short RNA encoding sequences that might epigenetically regulate adjacent genes. May be used to establish a basal yet reversible level of silencing in euchromatin." /db_xref="Araport:AT2G16390" /db_xref="GeneID:816136" /db_xref="TAIR:AT2G16390" CDS 359..3025 /gene="DRD1" /locus_tag="AT2G16390" /gene_synonym="CHR35; DEFECTIVE IN MERISTEM SILENCING 1; DEFECTIVE IN RNA-DIRECTED DNA METHYLATION 1; DMS1; F16F14.11; F16F14_11" /inference="Similar to RNA sequence, EST:INSD:ES083184.1,INSD:ES034363.1,INSD:EL098697.1, INSD:BE525817.1,INSD:CB518291.1,INSD:ES038960.1" /note="DEFECTIVE IN RNA-DIRECTED DNA METHYLATION 1 (DRD1); FUNCTIONS IN: helicase activity, DNA binding, ATP binding, nucleic acid binding; INVOLVED IN: DNA methylation, production of siRNA involved in RNA interference; LOCATED IN: cellular_component unknown; EXPRESSED IN: 9 plant structures; EXPRESSED DURING: 6 growth stages; CONTAINS InterPro DOMAIN/s: DEAD-like helicase, N-terminal (InterPro:IPR014001), DNA/RNA helicase, C-terminal (InterPro:IPR001650), Helicase, superfamily 1/2, ATP-binding domain (InterPro:IPR014021), SNF2-related (InterPro:IPR000330); BEST Arabidopsis thaliana protein match is: chromatin remodeling 34 (TAIR:AT2G21450.1); Has 13448 Blast hits to 11886 proteins in 1506 species: Archae - 91; Bacteria - 3564; Metazoa - 3285; Fungi - 3284; Plants - 1229; Viruses - 105; Other Eukaryotes - 1890 (source: NCBI BLink)." /codon_start=1 /product="SNF2 domain-containing protein / helicase domain-containing protein" /protein_id="NP_179232.1" /db_xref="Araport:AT2G16390" /db_xref="GeneID:816136" /db_xref="TAIR:AT2G16390" /translation="
MGFVYIVMTGYYKNVHKRKQNQVDDGPEAKRVKSSAKVIDYSNPFAVSNMLEALDSGKFGSVSKELEEIADMRMDLVKRSIWLYPSLAYTVFEAEKTMDNQQVVEGVINLDDDDDDDTDVEKKALCVVPSSSEIVLLDSDDEDNERQRPMYQFQSTLVQHQKNQGDVTPLIPQCSFEEVDLGRGKEMPSAIKAIVEGQTSRGKVLPIENGVVNEKGVYVGVEEDDSDNESEAADEDLGNIWNEMALSIECSKDVARETSHKEKADVVEDCEHSFILKDDMGYVCRVCGVIEKSILEIIDVQFTKAKRNTRTYASETRTKRFGESDNELKFSEEGLMIGGLAAHPTHAAEMKPHQIEGFQFLCSNLVADDPGGCIMAHAPGSGKTFMIISFMQSFLAKYPQAKPLVVLPKGILPTWKKEFVRWQVEDIPLLDFYSAKAENRAQQLSILKQWMEKKSILFLGYQQFSTIVCDDTTDSLSCQEILLKVPSILILDEGHTPRNEDTNLLQSLAQVQTPRKVVLSGTLYQNHVKEVFNILNLVRPKFLKLDTSKSAVKRILAYTPCDVRGRLTGSNSDMASMFNETVEHTLQKSEDFTVKIKVIQDLREMTKKVLHYYKGDFLDELPGLADFTVVLNLSPKQLNEVKKLRREKRKFKVSAVGSAIYLHPKLKVFSDKSDDVSDTTMDEMVEKLDLNEGVKAKFFLNLINLCDSAGEKLLVFSQYLIPLKFLERLAALAKGWKLGKEVFVLTGNTSSEQREWSMETFNSSPDAKIFFGSIKACGEGISLVGASRILILDVPLNPSVTRQAIGRAFRPGQKKMVHAYRLIAGSSPEEEDHNTCFKKEVISKMWFEWNEYCGYQNFEVETIDVDEAGDTFLESPALREDIRVLYKR"
misc_feature <1400..2848 /gene="DRD1" /locus_tag="AT2G16390" /gene_synonym="CHR35; DEFECTIVE IN MERISTEM SILENCING 1; DEFECTIVE IN RNA-DIRECTED DNA METHYLATION 1; DMS1; F16F14.11; F16F14_11" /note="Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, and repair]; Region: HepA; COG0553" /db_xref="CDD:440319" misc_feature 1406..2056 /gene="DRD1" /locus_tag="AT2G16390" /gene_synonym="CHR35; DEFECTIVE IN MERISTEM SILENCING 1; DEFECTIVE IN RNA-DIRECTED DNA METHYLATION 1; DMS1; F16F14.11; F16F14_11" /note="DEXH-box helicase domain of ATRX-like proteins; Region: DEXHc_ATRX-like; cd18007" /db_xref="CDD:350765" misc_feature order(1493..1513,1610..1612,1832..1837) /gene="DRD1" /locus_tag="AT2G16390" /gene_synonym="CHR35; DEFECTIVE IN MERISTEM SILENCING 1; DEFECTIVE IN RNA-DIRECTED DNA METHYLATION 1; DMS1; F16F14.11; F16F14_11" /note="ATP binding site [chemical binding]; other site" /db_xref="CDD:350765" ORIGIN
tcaaattcccgagtcagagtctctcagcttcgaagcacgagcgagcgaggcaaaccaaaaagaatccaatttacatcatcttctccaaaattcagctcgaaattttcaacctttactggtttaatggacattctccagaccgatcaagcttcctcaaacggtatacgaatctctctgtgaaaaaaattaggtctttcttctgattttagtgtcactacattatatgcatgtcgttcccaaacccgattttgtgttagttgatccaaatatttgaagaaattatgagtaattttgcaatgttctgaagccaaagttgttgtctttcttgtttttgtttatttggagagtaatgtgacagatgggttttgtttacattgtgatgacagggtactataagaatgtgcataaaagaaagcaaaatcaagttgatgatggacctgaagcaaagcgggtcaagagttcagccaaagttattgattactctaacccatttgcagttagtaacatgcttgaagctttagatagtggtaaatttgggagtgttagtaaagagttggaagagatagctgatatgaggatggatttggttaagcgttctatttggttatacccgtcgctagcgtataccgtgtttgaagctgagaagacgatggataatcaacaggttgtggaaggtgttattaatttggatgatgatgatgatgatgatactgatgtggagaagaaagctctctgtgttgttccttcgtcgtctgagattgtgcttcttgattctgatgatgaagacaatgagaggcagaggcctatgtatcagtttcagtctactcttgtacagcatcagaagaatcaaggggatgtgactccattaataccgcaatgctctttcgaggaggtcgatttagggaggggcaaggagatgccttctgccattaaagccattgttgagggacaaacaagtagaggcaaagtccttcctatagaaaatggtgtggttaatgagaaaggtgtctacgtgggcgttgaggaggatgacagtgataatgagtctgaagcagcagatgaagatcttggtaatatctggaatgaaatggccttgtcaatagagtgttccaaggatgtagcaagggagacttcacataaggaaaaggcagatgtagtggaagattgtgagcactcatttattctaaaggacgatatgggttatgtttgccgtgtctgcggagttattgagaaaagtatactagagataattgatgtgcaattcactaaagcaaaacgaaacacaagaacatatgcctctgaaactagaactaaaaggtttggcgaatctgataatgaacttaagttttctgaagaagggttgatgataggtggacttgctgctcatccaacgcatgctgccgaaatgaagcctcatcaaattgagggatttcagttcctttgcagcaatttagtggctgacgatcctggtggctgtatcatggctcatgctccaggctctggaaaaaccttcatgatcatcagttttatgcagagctttcttgcaaagtatcctcaggctaagccattggttgttctcccaaaaggtattctgcctacttggaaaaaagagttcgtgagatggcaagttgaggacataccactgcttgatttctatagtgctaaagcagagaaccgggcacagcagctgtctattttgaaacagtggatggagaagaagagtatcttatttcttgggtaccagcagttctcaactattgtgtgtgatgatacaaccgactcactttcttgccaggagatactgctcaaggtaccttcgatcctcattttggatgaaggacacactccaaggaatgaggacacaaatttattgcagtcacttgcccaagtccaaacaccaagaaaagttgtcctctcaggaacgctttatcagaaccatgtaaaggaggttttcaacattctgaaccttgttcgacccaaattcctcaaattggatacctccaaatctgctgtgaagagaatcttggcttatactccatgcgatgtcagggggagacttactggaagtaattcagatatggcttcaatgttcaatgaaactgtggagcacaccctgcagaagagcgaggatttcacagtgaaaattaaagtaatccaagatttgcgggagatgacaaagaaagtgcttcattactataaaggagatttcctagatgagcttcctggacttgctgatttcactgtggttcttaatctgtctccaaagcagttgaacgaagtgaagaagttaagacgtgagaagagaaaatttaaggtttcggctgtgggaagtgcaatttaccttcacccgaagctgaaagttttctctgacaagtctgatgatgtttctgatacaactatggacgaaatggtagagaagctagatttgaatgaaggcgtcaaagcaaagttcttccttaacttgataaacctgtgcgactcagctggtgaaaagctcttggttttcagccagtatctcattccactaaagtttcttgaaagactagctgctttagctaagggatggaaactagggaaagaagtttttgttcttacaggcaataccagttctgagcagcgtgagtggtcaatggaaacgtttaacagttcgccagacgccaaaatattctttggttcgataaaagcatgtggagaaggtatctcgcttgttggagcatctcgcatactaatattggatgttcccctaaacccttctgtgacccgccaagctattgggcgagcgtttcgacccggacaaaagaagatggtgcatgcatatagattgattgctgggtcatcacctgaggaagaggatcacaacacttgtttcaaaaaggaagtcatctcaaagatgtggttcgagtggaacgagtactgcggatatcaaaactttgaggtagagacgatcgatgtggatgaagctggtgatacgttcctcgaaagtcctgccttaagagaagacataagagttctctacaaaaggtaaacgcagacagaaacttgtgcttccgctttttggacatgcttaggttttagaaacctgtcaataagataacttcgggtag
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Creative Commons Attribution 4.0 International License (CC BY 4.0).
If you use GGRNA in your work, please cite:
Naito Y, Bono H. (2012)
GGRNA: an ultrafast, transcript-oriented search engine for genes and transcripts.
Nucleic Acids Res., 40, W592-W596.
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