2024-09-28 09:25:02, GGRNA.v2 : RefSeq release 225 (Jul, 2024)
LOCUS NM_001202971 1227 bp mRNA linear PLN 20-OCT-2022 DEFINITION Arabidopsis thaliana silencing defective 5 (SDE5), mRNA. ACCESSION NM_001202971 VERSION NM_001202971.2 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 1227) AUTHORS Salanoubat,M., Lemcke,K., Rieger,M., Ansorge,W., Unseld,M., Fartmann,B., Valle,G., Blocker,H., Perez-Alonso,M., Obermaier,B., Delseny,M., Boutry,M., Grivell,L.A., Mache,R., Puigdomenech,P., De Simone,V., Choisne,N., Artiguenave,F., Robert,C., Brottier,P., Wincker,P., Cattolico,L., Weissenbach,J., Saurin,W., Quetier,F., Schafer,M., Muller-Auer,S., Gabel,C., Fuchs,M., Benes,V., Wurmbach,E., Drzonek,H., Erfle,H., Jordan,N., Bangert,S., Wiedelmann,R., Kranz,H., Voss,H., Holland,R., Brandt,P., Nyakatura,G., Vezzi,A., D'Angelo,M., Pallavicini,A., Toppo,S., Simionati,B., Conrad,A., Hornischer,K., Kauer,G., Lohnert,T.H., Nordsiek,G., Reichelt,J., Scharfe,M., Schon,O., Bargues,M., Terol,J., Climent,J., Navarro,P., Collado,C., Perez-Perez,A., Ottenwalder,B., Duchemin,D., Cooke,R., Laudie,M., Berger-Llauro,C., Purnelle,B., Masuy,D., de Haan,M., Maarse,A.C., Alcaraz,J.P., Cottet,A., Casacuberta,E., Monfort,A., Argiriou,A., flores,M., Liguori,R., Vitale,D., Mannhaupt,G., Haase,D., Schoof,H., Rudd,S., Zaccaria,P., Mewes,H.W., Mayer,K.F., Kaul,S., Town,C.D., Koo,H.L., Tallon,L.J., Jenkins,J., Rooney,T., Rizzo,M., Walts,A., Utterback,T., Fujii,C.Y., Shea,T.P., Creasy,T.H., Haas,B., Maiti,R., Wu,D., Peterson,J., Van Aken,S., Pai,G., Militscher,J., Sellers,P., Gill,J.E., Feldblyum,T.V., Preuss,D., Lin,X., Nierman,W.C., Salzberg,S.L., White,O., Venter,J.C., Fraser,C.M., Kaneko,T., Nakamura,Y., Sato,S., Kato,T., Asamizu,E., Sasamoto,S., Kimura,T., Idesawa,K., Kawashima,K., Kishida,Y., Kiyokawa,C., Kohara,M., Matsumoto,M., Matsuno,A., Muraki,A., Nakayama,S., Nakazaki,N., Shinpo,S., Takeuchi,C., Wada,T., Watanabe,A., Yamada,M., Yasuda,M. and Tabata,S. CONSRTM European Union Chromosome 3 Arabidopsis Sequencing Consortium; Institute for Genomic Research; Kazusa DNA Research Institute TITLE Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana JOURNAL Nature 408 (6814), 820-822 (2000) PUBMED 11130713 REFERENCE 2 (bases 1 to 1227) 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 1227) 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 1227) 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_003074). On Sep 12, 2016 this sequence version replaced NM_001202971.1. FEATURES Location/Qualifiers source 1..1227 /organism="Arabidopsis thaliana" /mol_type="mRNA" /db_xref="taxon:3702" /chromosome="3" /ecotype="Columbia" gene 1..1227 /gene="SDE5" /locus_tag="AT3G15390" /gene_synonym="silencing defective 5" /note="Encodes a novel protein that is similar to PRL1 interacting factor and is involved in virus induced silencing." /db_xref="Araport:AT3G15390" /db_xref="GeneID:820778" /db_xref="TAIR:AT3G15390" CDS 161..1060 /gene="SDE5" /locus_tag="AT3G15390" /gene_synonym="silencing defective 5" /note="silencing defective 5 (SDE5); FUNCTIONS IN: molecular_function unknown; INVOLVED IN: production of ta-siRNAs involved in RNA interference; LOCATED IN: cellular_component unknown; EXPRESSED IN: 21 plant structures; EXPRESSED DURING: 12 growth stages; CONTAINS InterPro DOMAIN/s: Domain of unknown function DUF1771 (InterPro:IPR013899); BEST Arabidopsis thaliana protein match is: smr (Small MutS Related) domain-containing protein (TAIR:AT5G58720.1)." /codon_start=1 /product="silencing defective 5" /protein_id="NP_001189900.1" /db_xref="GeneID:820778" /db_xref="TAIR:AT3G15390" /db_xref="Araport:AT3G15390" /translation="
MALSTEKLLDFSDTKKYADVGISNEVMSKVDPQRQSTSCNQMELQKISQSVGARTFTGSQEGRNAKNGLEKEVLEALFSGAERYVDKPKVTRHFGERRPGVAGRPVFKPLEDPFQERVVAVKQSSNTSKEDDDENEFKAHRKAVREHLNQMKEYYGAAAEAFSKGETERAHRLVEKGHFFGQKAREADDKSVAKMIDVNQEDDSTYEEDEVVTVNMNEHEAKEALRLLKRQLIYFSGISSFKYLRVQLGEKKEDFKSKRKHIVKLLEGESIPWTEEDGGLVIMIRVDEIDPKKLSFAKK"
misc_feature 578..757 /gene="SDE5" /locus_tag="AT3G15390" /gene_synonym="silencing defective 5" /note="Domain of unknown function (DUF1771); Region: DUF1771; pfam08590" /db_xref="CDD:462528" ORIGIN
caataattacaattatacccttgagccactttgacaatccttttctctgtcttggtactactgctgactaaaatttgagataaagttgacttttcataccgactgtcgcctctaattttgatcacttgattgttagtggtatctctataactcttggcatatggctcttagtacggagaaactgcttgacttttctgataccaagaaatatgctgatgttggaatttccaatgaagttatgtcaaaagttgatcctcaaagacaatctacatcctgcaaccaaatggaactacaaaaaatttctcagagtgttggagcaagaacctttacaggttcacaggaagggcgtaatgctaagaatggtcttgaaaaggaagttttagaagctttgttctcaggtgcggaaagatatgtggacaaaccaaaagtaactcgacattttggagaaaggagacctggagttgctggtcgtcctgtttttaaacctctggaagacccttttcaagagagagtagttgctgtgaaacaatcgtccaatacatctaaagaagatgacgatgaaaatgaatttaaggcacatcgtaaagcagtacgcgagcatttgaatcagatgaaagaatattatggagctgctgcagaagcattctccaaaggagaaaccgagcgagcacacagactcgtggagaagggacacttttttggacaaaaagctcgagaagcagatgacaaatctgtagcaaagatgattgacgtcaatcaagaagatgattcaacttacgaggaagacgaggtagtgacagtaaatatgaatgaacacgaagcaaaagaagctcttcgtcttctcaagcgccaacttatttacttctctggcatttcatctttcaagtacctcagagtccaattgggtgagaagaaggaagatttcaagagcaaacgaaagcatatcgtaaagctgctggagggagaatccattccttggactgaagaagatggcggcctcgtgataatgattcgggttgatgagattgaccccaagaaattgagttttgccaagaaataagaaccattggtttattcttttgcttcattctattagaaattggttgcaacgtttaaagcattatgatttgttatgtaaccaaacaaagatgcattttgcggaaatatgatttttggtttcggaatcgaagaattatcaagccatctgacattacaatatgcttagaa
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@meso_cacase at
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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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