2024-09-28 09:27:36, GGRNA.v2 : RefSeq release 225 (Jul, 2024)
LOCUS NM_001337464 3700 bp mRNA linear PLN 20-OCT-2022 DEFINITION Arabidopsis thaliana dicer-like 2 (DCL2), mRNA. ACCESSION NM_001337464 VERSION NM_001337464.1 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 3700) 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 3700) 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 3700) 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 3700) 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). FEATURES Location/Qualifiers source 1..3700 /organism="Arabidopsis thaliana" /mol_type="mRNA" /db_xref="taxon:3702" /chromosome="3" /ecotype="Columbia" gene 1..3700 /gene="DCL2" /locus_tag="AT3G03300" /gene_synonym="ATDCL2; dicer-like 2; DICER-LIKE 2; T17B22.28" /note="Encodes a Dicer-like protein that functions in the antiviral silencing response in turnip-crinkle virus-infected plants but not in TMV or CMV-strain-Y-infected plants. Involved in the production of ta-siRNAs. Partially antagonizes the production of miRNAs by DCL1. Substitutes for DCL4 to produce viral siRNA when DCL4 is missing or inhibited. Able to produce siRNAs but not miRNAs." /db_xref="Araport:AT3G03300" /db_xref="GeneID:821300" /db_xref="TAIR:AT3G03300" CDS 79..3606 /gene="DCL2" /locus_tag="AT3G03300" /gene_synonym="ATDCL2; dicer-like 2; DICER-LIKE 2; T17B22.28" /codon_start=1 /product="dicer-like 2" /protein_id="NP_001327050.1" /db_xref="GeneID:821300" /db_xref="Araport:AT3G03300" /db_xref="TAIR:AT3G03300" /translation="
MNSKVYTCENESVLAGFVPFSTPSFKYYQHIKIPSPKRASLVEKLERLTIKHRLSLGTLDLNSSTVDSVEKRLLRISSTLTYCLDDLGILLAQKAAQSLSASQNDSFLWGELNMFSVALVKKFCSDASQEFLAEIPQGLNWSVANINGNAEAGLLTLKTVCLIETLLGYSSLENIRCIIFVDRVITAIVLESLLAEILPNCNNWKTKYVAGNNSGLQNQTRKKQNEIVEDFRRGLVNIIVATSILEEGLDVQSCNLVIRFDPASNICSFIQSRGRARMQNSDYLMMVESGDLLTQSRLMKYLSGGKRMREESLDHSLVPCPPLPDDSDEPLFRVESTGATVTLSSSVSLIYHYCSRLPSDEYFKPAPRFDVNKDQGSCTLYLPKSCPVKEVKAEANNKVLKQAVCLKACIQLHKVGALSDHLVPDMVVAETVSQKLEKIQYNTEQPCYFPPELVSQFSAQPETTYHFYLIRMKPNSPRNFHLNDVLLGTRVVLEDDIGNTSFRLEDHRGTIAVTLSYVGAFHLTQEEVLFCRRFQITLFRVLLDHSVENLMEALNGLHLRDGVALDYLLVPSTHSHETSLIDWEVIRSVNLTSHEVLEKHENCSTNGASRILHTKDGLFCTCVVQNALVYTPHNGYVYCTKGVLNNLNGNSLLTKRNSGDQTYIEYYEERHGIQLNFVDEPLLNGRHIFTLHSYLHMAKKKKEKEHDREFVELPPELCHVILSPISVDMIYSYTFIPSVMQRIESLLIAYNLKKSIPKVNIPTIKVLEAITTKKCEDQFHLESLETLGDSFLKYAVCQQLFQHCHTHHEGLLSTKKDGMISNVMLCQFGCQQKLQGFIRDECFEPKGWMVPGQSSAAYSLVNDTLPESRNIYVASRRNLKRKSVADVVESLIGAYLSEGGELAALMFMNWVGIKVDFTTTKIQRDSPIQAEKLVNVGYMESLLNYSFEDKSLLVEALTHGSYMMPEIPRCYQRLEFLGDSVLDYLITKHLYDKYPCLSPGLLTDMRSASVNNECYALVAVKANLHKHILYASHHLHKHISRTVSEFEQSSLQSTFGWESDISFPKVLGDVIESLAGAIFVDSGYNKEVVFASIKPLLGCMITPETVKLHPVRELTELCQKWQFELSKAKDFDSFTVEVKAKEMSFAHTAKASDKKMAKKLAYKEVLNLLKNSLDY"
misc_feature 550..939 /gene="DCL2" /locus_tag="AT3G03300" /gene_synonym="ATDCL2; dicer-like 2; DICER-LIKE 2; T17B22.28" /note="C-terminal helicase domain of the endoribonuclease Dicer; Region: SF2_C_dicer; cd18802" /db_xref="CDD:350189" misc_feature order(622..630,808..810,865..867,871..873) /gene="DCL2" /locus_tag="AT3G03300" /gene_synonym="ATDCL2; dicer-like 2; DICER-LIKE 2; T17B22.28" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:350189" misc_feature order(820..822,826..828,901..903,907..909) /gene="DCL2" /locus_tag="AT3G03300" /gene_synonym="ATDCL2; dicer-like 2; DICER-LIKE 2; T17B22.28" /note="ATP binding site [chemical binding]; other site" /db_xref="CDD:350189" misc_feature 1114..1350 /gene="DCL2" /locus_tag="AT3G03300" /gene_synonym="ATDCL2; dicer-like 2; DICER-LIKE 2; T17B22.28" /note="Dicer dimerization domain; Region: Dicer_dimer; pfam03368" /db_xref="CDD:460900" misc_feature 1858..2250 /gene="DCL2" /locus_tag="AT3G03300" /gene_synonym="ATDCL2; dicer-like 2; DICER-LIKE 2; T17B22.28" /note="PAZ domain, named PAZ after the proteins Piwi Argonaut and Zwille. PAZ is found in two families of proteins that are essential components of RNA-mediated gene-silencing pathways, including RNA interference, the piwi and Dicer families. PAZ functions as a...; Region: PAZ; cl00301" /db_xref="CDD:469713" misc_feature order(1990..1992,2065..2067,2077..2079,2131..2133, 2209..2211,2215..2217) /gene="DCL2" /locus_tag="AT3G03300" /gene_synonym="ATDCL2; dicer-like 2; DICER-LIKE 2; T17B22.28" /note="nucleic acid-binding interface [nucleotide binding]; other site" /db_xref="CDD:239207" misc_feature 2377..2808 /gene="DCL2" /locus_tag="AT3G03300" /gene_synonym="ATDCL2; dicer-like 2; DICER-LIKE 2; T17B22.28" /note="Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in post-transcriptional...; Region: RIBOc; cd00593" /db_xref="CDD:238333" misc_feature order(2422..2427,2434..2439,2446..2448,2455..2460, 2467..2472,2476..2484,2512..2514,2764..2766,2791..2793) /gene="DCL2" /locus_tag="AT3G03300" /gene_synonym="ATDCL2; dicer-like 2; DICER-LIKE 2; T17B22.28" /note="dimerization interface [polypeptide binding]; other site" /db_xref="CDD:238333" misc_feature order(2422..2424,2431..2433,2443..2445,2734..2736, 2743..2745) /gene="DCL2" /locus_tag="AT3G03300" /gene_synonym="ATDCL2; dicer-like 2; DICER-LIKE 2; T17B22.28" /note="active site" /db_xref="CDD:238333" misc_feature order(2431..2433,2734..2736,2743..2745) /gene="DCL2" /locus_tag="AT3G03300" /gene_synonym="ATDCL2; dicer-like 2; DICER-LIKE 2; T17B22.28" /note="metal binding site [ion binding]; metal-binding site" /db_xref="CDD:238333" misc_feature 2929..3393 /gene="DCL2" /locus_tag="AT3G03300" /gene_synonym="ATDCL2; dicer-like 2; DICER-LIKE 2; T17B22.28" /note="Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in post-transcriptional...; Region: RIBOc; cd00593" /db_xref="CDD:238333" misc_feature order(2992..2997,3004..3009,3016..3018,3025..3030, 3037..3042,3046..3054,3082..3084,3313..3315,3346..3348) /gene="DCL2" /locus_tag="AT3G03300" /gene_synonym="ATDCL2; dicer-like 2; DICER-LIKE 2; T17B22.28" /note="dimerization interface [polypeptide binding]; other site" /db_xref="CDD:238333" misc_feature order(2992..2994,3001..3003,3013..3015,3283..3285, 3292..3294) /gene="DCL2" /locus_tag="AT3G03300" /gene_synonym="ATDCL2; dicer-like 2; DICER-LIKE 2; T17B22.28" /note="active site" /db_xref="CDD:238333" misc_feature order(3001..3003,3283..3285,3292..3294) /gene="DCL2" /locus_tag="AT3G03300" /gene_synonym="ATDCL2; dicer-like 2; DICER-LIKE 2; T17B22.28" /note="metal binding site [ion binding]; metal-binding site" /db_xref="CDD:238333" misc_feature 3400..3585 /gene="DCL2" /locus_tag="AT3G03300" /gene_synonym="ATDCL2; dicer-like 2; DICER-LIKE 2; T17B22.28" /note="double-stranded RNA binding motif (DSRM) superfamily; Region: DSRM_SF; cl00054" /db_xref="CDD:444671" misc_feature order(3421..3426,3430..3432,3478..3480,3535..3543, 3550..3552) /gene="DCL2" /locus_tag="AT3G03300" /gene_synonym="ATDCL2; dicer-like 2; DICER-LIKE 2; T17B22.28" /note="RNA binding site [nucleotide binding]; other site" /db_xref="CDD:380704" ORIGIN
cttctttgtctttcttctctcaactaaggtgaaaatctggatagctactggaaaaaaattcatgaactcgaaactctaatgaattcaaaggtctatacctgtgagaatgagtctgtgctggctgggtttgtccccttttctacaccaagcttcaagtattaccagcacataaaaataccaagtcccaaacgagcaagcttggtagagaagctagaaagactaacgataaagcatcgcttatcccttggaaccttggatctcaactcctctactgttgattctgtagagaagagactgttgaggataagttcaactctaacatattgtttggatgatctcggaattttgctggcccagaaggctgctcagtcattgtcagccagtcagaatgactctttcttgtggggcgaactaaatatgtttagcgtggccttggtaaaaaaattctgctctgatgcttcacaggagtttttggctgagatacctcaaggtcttaattggagtgttgcaaacataaatggaaatgcggaggcaggtctcctaactttaaaaactgtctgcctcattgagactcttcttggttatagctccttggagaacatacggtgcatcatttttgtggatagggtgataacagccatcgttctggaatcccttttggctgagattcttccaaactgtaataactggaaaaccaagtacgttgcaggaaataactctggtctgcaaaatcaaactcggaagaagcaaaatgaaattgtggaagacttccggagaggcttggttaacatcattgtagcaacatctattctagaggagggtctagatgttcaaagttgcaacctggttatcagatttgaccctgcatccaacatttgcagtttcatacagtctcgtgggcgtgctagaatgcaaaattcagattatttgatgatggtggaaagcggagatctgttaacacaatctcgattaatgaaatatctttctggtgggaaaagaatgcgcgaagagtctttggatcattctcttgttccctgtccacctcttccagatgattcagatgaaccactcttccgtgtcgaaagtactggagcaactgtaactcttagctcaagcgtcagcttaatatatcattactgctcaaggcttccttcagatgagtacttcaaaccagcccctagatttgatgtaaacaaggatcaggggagttgcaccctttaccttcctaagagttgcccagtaaaagaagttaaagctgaagcaaataataaagtgttaaaacaagctgtctgtcttaaagcttgcattcaactgcacaaagttggagctctaagtgatcatcttgtgcctgacatggttgtggcggaaactgtctcacaaaaactcgagaaaatccaatataacacagagcagccatgttacttccccccagagctagtctcccagttttcagcacagccggagacaacataccacttctacttaataagaatgaagccaaactctccaagaaattttcatttaaacgatgttttactaggcaccagagttgtgcttgaagatgacattgggaacacaagcttccggttggaagatcataggggtacaatagctgtgacattgagttatgtgggagcttttcaccttacacaagaagaggtccttttctgtagaagatttcagataactctattccgagttcttttagatcacagtgtggaaaatttgatggaggcattgaatggattgcatctcagagatggggtggcacttgattatctactagttccatccactcattcacatgaaacatctcttattgattgggaagtgatcagatccgtgaatctaacttctcatgaggttttggaaaaacacgaaaattgttctaccaacggtgcttctcgcattctacacacaaaagacggcttgttttgtacttgtgtcgtacaaaatgcattggtttacacaccacataatggatacgtctactgcacaaaaggtgttctcaacaatctaaacggaaattcattattgaccaagagaaattctggcgatcagacttacattgagtactacgaggaaaggcatgggattcaattaaattttgtggatgaacctcttctaaatggaagacacattttcacgttgcatagttatcttcacatggccaagaagaagaaggagaaagagcatgacagggaatttgttgaactacctcctgagctttgtcatgtcattttgtccccaatatcagttgatatgatctattcatatacttttatcccatctgttatgcaacgcattgaatctttgcttatagcatacaacctgaagaaaagcatcccaaaagtcaatattccaaccattaaggttttggaagctattacgacaaagaagtgcgaagatcagttccacttggaatcactagaaactcttggtgactcttttctgaaatatgctgtttgtcagcaactattccaacactgtcatactcaccatgagggtcttcttagcacgaagaaagatggaatgatttcaaatgtcatgctctgccaatttggatgtcagcagaaacttcagggatttatccgcgatgagtgttttgaacccaaaggttggatggttccaggtcaatcatctgcagcttattcacttgtaaacgatactctacccgagtctagaaacatatacgttgctagtaggaggaatctgaaacgcaagagtgtggccgatgttgtagaatcattaattggagcatatctcagcgagggaggtgaacttgcagctttgatgttcatgaattgggttggaataaaggtcgactttacaactacgaagatccagagagattccccaatacaagcagagaagcttgtgaatgtaggttatatggagtcgctgttgaattacagttttgaggataagtctcttctagttgaagcattgactcatggttcatacatgatgcctgaaattccaagatgctatcagcggttggagttcctcggtgactctgtattggattatctcataaccaagcatctatacgacaaatatccttgtctgtcccctggactattaaccgacatgcgatcagcttctgttaacaatgaatgttatgccctagtggcggtgaaagcaaacctgcacaaacacatcctgtacgcctctcatcatctccataagcacatctctagaactgtcagtgagtttgaacagtcttctttgcaatccactttcggatgggaatccgatatatcttttccaaaggttcttggagatgtgatagaatctctagcaggcgcgatatttgttgactcaggttacaacaaggaagtagtgtttgcaagtattaaaccacttttgggttgtatgataactccagagactgtcaagttgcatcctgtgagagagttgacagaattatgtcagaagtggcagttcgagttgagtaaagctaaagatttcgattctttcacggttgaggtgaaagctaaggagatgagttttgctcacacagcaaaggcctctgataagaaaatggccaagaaattggcttacaaagaagtcttgaacttacttaagaacagcctggactactaaatttctttttcttgtcaactttattgcattcattcatgataataattgtcttagataacttacattactcttgattaatatttgataaatttat
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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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