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Previous release (v1)
2026-06-17 13:36:39, GGRNA.v2 : RefSeq release 233 (Jan, 2026)
LOCUS NM_001161191 4890 bp mRNA linear PLN 20-OCT-2022
DEFINITION Arabidopsis thaliana dicer-like 3 (DCL3), mRNA.
ACCESSION NM_001161191
VERSION NM_001161191.3
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 4890)
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 4890)
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 4890)
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 4890)
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_001161191.2.
FEATURES Location/Qualifiers
source 1..4890
/organism="Arabidopsis thaliana"
/mol_type="mRNA"
/db_xref="taxon:3702"
/chromosome="3"
/ecotype="Columbia"
gene 1..4890
/gene="DCL3"
/locus_tag="AT3G43920"
/gene_synonym="ATDCL3; dicer-like 3; DICER-LIKE 3"
/note="Encodes a ribonuclease III family protein that is
required for endogenous RDR2-dependent siRNA (but not
miRNA) formation."
/db_xref="Araport:AT3G43920"
/db_xref="GeneID:823508"
/db_xref="TAIR:AT3G43920"
CDS 149..4861
/gene="DCL3"
/locus_tag="AT3G43920"
/gene_synonym="ATDCL3; dicer-like 3; DICER-LIKE 3"
/note="dicer-like 3 (DCL3); CONTAINS InterPro DOMAIN/s:
DNA/RNA helicase, DEAD/DEAH box type, N-terminal
(InterPro:IPR011545), DEAD-like helicase, N-terminal
(InterPro:IPR014001), Argonaute/Dicer protein, PAZ
(InterPro:IPR003100), DNA/RNA helicase, C-terminal
(InterPro:IPR001650), Helicase, superfamily 1/2,
ATP-binding domain (InterPro:IPR014021), Ribonuclease III
(InterPro:IPR000999); BEST Arabidopsis thaliana protein
match is: dicer-like 1 (TAIR:AT1G01040.1); Has 13599 Blast
hits to 8740 proteins in 2670 species: Archae - 198;
Bacteria - 7991; Metazoa - 1636; Fungi - 703; Plants -
621; Viruses - 45; Other Eukaryotes - 2405 (source: NCBI
BLink)."
/codon_start=1
/product="dicer-like 3"
/protein_id="NP_001154663.2"
/db_xref="GeneID:823508"
/db_xref="TAIR:AT3G43920"
/db_xref="Araport:AT3G43920"
/translation="
MHSSLEPEKMEEGGGSNSLKRKFSEIDGDQNLDSVSSPMMTDSNGSYELKVYEVAKNRNIIAVLGTGIDKSEITKRLIKAMGSSDTDKRLIIFLAPTVNLVKQQCCEIRALVNLKVEEYFGAKGVDKWTSQRWDEEFSKHDVLVMTPQILLDVLRSAFLKLEMVCLLIIDECHHTTGNHPYAKLMKEFYHESTSKPKIFGLTASAVIRKAQVSELERLMDSKIFNPEEREGVEKFATTVKEGPILYNPSPSCSLELKEKLETSHLKFDASLRRLQELGKDSFLNMDNKFETYQKRLSIDYREILHCLDNLGLICAHLAAEVCLEKISDTKEESETYKECSMVCKEFLEDILSTIGVYLPQDDKSLVDLQQNHLSAVISGHVSPKLKELFHLLDSFRGDKQKQCLILVERIITAKVIERFVKKEASLAYLNVLYLTENNPSTNVSAQKMQIEIPDLFQHGKVNLLFITDVVEEGFQVPDCSCMVCFDLPKTMCSYSQSQKHAKQSNSKSIMFLERGNPKQRDHLHDLMRREVLIQDPEAPNLKSCPPPVKNGHGVKEIGSMVIPDSNITVSEEAASTQTMSDPPSRNEQLPPCKKLRLDNNLLQSNGKEKVASSKSKSSSSAAGSKKRKELHGTTCANALSGTWGENIDGATFQAYKFDFCCNISGEVYSSFSLLLESTLAEDVGKVEMDLYLVRKLVKASVSPCGQIRLSQEELVKAKYFQQFFFNGMFGKLFVGSKSQGTKREFLLQTDTSSLWHPAFMFLLLPVETNDLASSATIDWSAINSCASIVEFLKKNSLLDLRDSDGNQCNTSSGQEVLLDDKMEETNLIHFANASSDKNSLEELVVIAIHTGRIYSIVEAVSDSSAMSPFEVDASSGYATYAEYFNKKYGIVLAHPNQPLMKLKQSHHAHNLLVDFNEEMVVKTEPKAGNVRKRKPNIHAHLPPELLARIDVPRAVLKSIYLLPSVMHRLESLMLASQLREEIDCSIDNFSISSTSILEAVTTLTCPESFSMERLELLGDSVLKYVASCHLFLKYPDKDEGQLSRQRQSIISNSNLHRLTTSRKLQGYIRNGAFEPRRWTAPGQFSLFPVPCKCGIDTREVPLDPKFFTENMTIKIGKSCDMGHRWVVSKSVSDCAEALIGAYYVSGGLSASLHMMKWLGIDVDFDPNLVVEAINRVSLRCYIPKEDELIELERKIQHEFSAKFLLKEAITHSSLRESYSYERLEFLGDSVLDFLITRHLFNTYEQTGPGEMTDLRSACVNNENFAQVAVKNNLHTHLQRCATVLETQINDYLMSFQKPDETGRSIPSIQGPKALGDVVESIAGALLIDTRLDLDQVWRVFEPLLSPLVTPDKLQLPPYRELNELCDSLGYFFRVKCSNDGVKAQATIQLQLDDVLLTGDGSEQTNKLALGKAASHLLTQLEKRNISRKTSLGDNQSSMDVNLACNHSDRETLTSETTEIQSIVIPFIGPINMKKGGPRGTLHEFCKKHLWPMPTFDTSEEKSRTPFEFIDGGEKRTSFSSFTSTITLRIPNREAVMYAGEARPDKKSSFDSAVVELLYELERRKIVIIQK"
misc_feature 284..829
/gene="DCL3"
/locus_tag="AT3G43920"
/gene_synonym="ATDCL3; dicer-like 3; DICER-LIKE 3"
/note="DEXH-box helicase domain of endoribonuclease Dicer;
Region: DEXHc_dicer; cd18034"
/db_xref="CDD:350792"
misc_feature order(434..439,506..511,584..586,590..595,602..604,
677..685)
/gene="DCL3"
/locus_tag="AT3G43920"
/gene_synonym="ATDCL3; dicer-like 3; DICER-LIKE 3"
/note="nucleic acid binding site [nucleotide binding];
other site"
/db_xref="CDD:350792"
misc_feature 1289..1684
/gene="DCL3"
/locus_tag="AT3G43920"
/gene_synonym="ATDCL3; dicer-like 3; DICER-LIKE 3"
/note="C-terminal helicase domain of the endoribonuclease
Dicer; Region: SF2_C_dicer; cd18802"
/db_xref="CDD:350189"
misc_feature order(1370..1378,1553..1555,1610..1612,1616..1618)
/gene="DCL3"
/locus_tag="AT3G43920"
/gene_synonym="ATDCL3; dicer-like 3; DICER-LIKE 3"
/note="DNA binding site [nucleotide binding]"
/db_xref="CDD:350189"
misc_feature order(1565..1567,1571..1573,1646..1648,1652..1654)
/gene="DCL3"
/locus_tag="AT3G43920"
/gene_synonym="ATDCL3; dicer-like 3; DICER-LIKE 3"
/note="ATP binding site [chemical binding]; other site"
/db_xref="CDD:350189"
misc_feature 2588..3004
/gene="DCL3"
/locus_tag="AT3G43920"
/gene_synonym="ATDCL3; dicer-like 3; DICER-LIKE 3"
/note="PAZ domain, CAF_like subfamily. CAF (for carpel
factory) is a plant homolog of Dicer. CAF has been
implicated in flower morphogenesis and in early
Arabidopsis development and might function through
posttranscriptional regulation of specific mRNA...;
Region: PAZ_CAF_like; cd02844"
/db_xref="CDD:239210"
misc_feature order(2708..2710,2786..2788,2798..2800,2852..2854,
2963..2965,2969..2971)
/gene="DCL3"
/locus_tag="AT3G43920"
/gene_synonym="ATDCL3; dicer-like 3; DICER-LIKE 3"
/note="nucleic acid-binding interface [nucleotide
binding]; other site"
/db_xref="CDD:239210"
misc_feature 3134..3643
/gene="DCL3"
/locus_tag="AT3G43920"
/gene_synonym="ATDCL3; dicer-like 3; DICER-LIKE 3"
/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(3182..3187,3194..3199,3206..3208,3215..3220,
3227..3232,3236..3244,3272..3274,3575..3577,3602..3604)
/gene="DCL3"
/locus_tag="AT3G43920"
/gene_synonym="ATDCL3; dicer-like 3; DICER-LIKE 3"
/note="dimerization interface [polypeptide binding]; other
site"
/db_xref="CDD:238333"
misc_feature order(3182..3184,3191..3193,3203..3205,3545..3547,
3554..3556)
/gene="DCL3"
/locus_tag="AT3G43920"
/gene_synonym="ATDCL3; dicer-like 3; DICER-LIKE 3"
/note="active site"
/db_xref="CDD:238333"
misc_feature order(3191..3193,3545..3547,3554..3556)
/gene="DCL3"
/locus_tag="AT3G43920"
/gene_synonym="ATDCL3; dicer-like 3; DICER-LIKE 3"
/note="metal binding site [ion binding]; metal-binding
site"
/db_xref="CDD:238333"
misc_feature 3758..4201
/gene="DCL3"
/locus_tag="AT3G43920"
/gene_synonym="ATDCL3; dicer-like 3; DICER-LIKE 3"
/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(3809..3814,3821..3826,3833..3835,3842..3847,
3854..3859,3863..3871,3899..3901,4124..4126,4157..4159)
/gene="DCL3"
/locus_tag="AT3G43920"
/gene_synonym="ATDCL3; dicer-like 3; DICER-LIKE 3"
/note="dimerization interface [polypeptide binding]; other
site"
/db_xref="CDD:238333"
misc_feature order(3809..3811,3818..3820,3830..3832,4094..4096,
4103..4105)
/gene="DCL3"
/locus_tag="AT3G43920"
/gene_synonym="ATDCL3; dicer-like 3; DICER-LIKE 3"
/note="active site"
/db_xref="CDD:238333"
misc_feature order(3818..3820,4094..4096,4103..4105)
/gene="DCL3"
/locus_tag="AT3G43920"
/gene_synonym="ATDCL3; dicer-like 3; DICER-LIKE 3"
/note="metal binding site [ion binding]; metal-binding
site"
/db_xref="CDD:238333"
misc_feature 4592..4834
/gene="DCL3"
/locus_tag="AT3G43920"
/gene_synonym="ATDCL3; dicer-like 3; DICER-LIKE 3"
/note="double-stranded RNA binding motif (DSRM)
superfamily; Region: DSRM_SF; cl00054"
/db_xref="CDD:444671"
misc_feature order(4592..4597,4601..4603,4709..4711,4778..4786,
4793..4795)
/gene="DCL3"
/locus_tag="AT3G43920"
/gene_synonym="ATDCL3; dicer-like 3; DICER-LIKE 3"
/note="RNA binding site [nucleotide binding]; other site"
/db_xref="CDD:380679"
ORIGIN
aactcatgttctgacctcatttatacacttgcccagtggtcagtgcagaaaaagagaaaaagaatcacctttttgttttaatctcaaagtcgaaattcgaaattcctctactcttcccgttaagtgtgttcctttttatccgttcgtcatgcattcgtcgttggagccggagaaaatggaggaaggtgggggaagcaattcgcttaagagaaaattctctgaaatcgatggagatcaaaatcttgattctgtctcttctcctatgatgactgactctaatggtagttatgaattgaaagtgtacgaggttgctaagaacaggaacataattgctgttttggggacagggattgataagtcagagatcactaagaggcttatcaaagctatgggttcttctgatacagacaaaagattgataattttcttggccccaactgtgaatcttgttaaacagcaatgctgtgagatcagagcacttgtgaatttgaaagttgaagagtactttggagctaaaggagttgataaatggacatctcagcgctgggatgaggaatttagcaagcacgatgttttagttatgactcctcaaatattattggatgtccttagaagtgcattcctgaaactagagatggtatgtcttctaataatagatgaatgccaccataccactggcaatcatccctatgcgaagttaatgaaggaattctatcacgaatccactagcaaaccgaagatatttggattgactgcgtcagccgtcattagaaaagctcaagtatcagaacttgagagactcatggactcaaagatttttaatcctgaagagcgtgaaggagtggaaaagtttgctacaacggttaaagaaggtccaatattgtataacccatcaccatcctgtagtttggaattgaaagaaaagttagaaacttcacacctcaagtttgatgcttctcttagaaggcttcaagagttgggaaaagacagttttctgaatatggataataagtttgagacatatcaaaagagattgtctatcgactacagagagattttgcattgccttgataatcttggcctgatttgcgcacacttggcggctgaagtctgcttggagaaaatctcagatacgaaagaggaaagtgaaacttataaagaatgctcaatggtgtgcaaggaatttcttgaggatattttatccaccattggggtgtatttgccgcaagatgataagagtctggtagatttgcagcaaaaccatctgtcagcagtaatttctgggcatgtatctccaaagctaaaagaactcttccatctattggattcctttagaggtgacaagcaaaagcagtgccttattttagttgagagaattataactgcgaaagtgatcgaaagattcgttaagaaagaagcctctttggcttaccttaatgtcttgtatttaaccgaaaacaacccctccaccaatgtatcggcacagaaaatgcaaattgaaatccctgatttatttcaacatggcaaggtgaatcttttattcatcacagatgtggttgaagagggatttcaggttccagattgctcatgcatggtttgttttgacctgcccaaaacaatgtgtagttactcgcagtctcaaaaacatgccaaacagagtaattctaagtctatcatgtttcttgaaagagggaacccgaagcaaagagaccatctgcatgaccttatgcgaagagaagtcctaattcaagatccagaagctccaaacttgaaatcgtgtccacctccagtgaaaaatggacacggtgtgaaggagattggatccatggttatcccagattctaacataactgtatctgaggaagcagcttccacacaaactatgagtgatcctcctagcagaaatgagcagttaccaccgtgtaaaaagttacgcttggataacaatctcttacaatccaacggcaaagagaaggttgcctcttctaaaagtaaatcatcttcatcggctgcaggttcaaaaaaacgtaaggagttgcacggaacaacctgtgcaaacgcattgtcaggaacctggggagaaaatattgatggcgccacctttcaggcttataagtttgacttctgttgtaatatttctggcgaagtatactcgagtttctctcttttgcttgagtcaactctcgccgaggatgttggtaaagttgagatggacctttacttggtcaggaagcttgtcaaggcttctgtctcaccttgtggccagatacgtttgagtcaagaggagctggtcaaagcaaaatattttcagcagtttttctttaatggcatgtttggaaagttgtttgttggatctaagtcacagggaacaaagagagaatttttgcttcaaactgacactagttctctttggcaccctgcctttatgtttctactgctaccagttgaaacaaatgatctagcttcgagtgcgacaattgattggtcagctatcaactcctgtgcctcaatagttgagttcttgaagaaaaattctcttcttgatcttcgggatagtgatgggaatcagtgcaatacctcatccggtcaggaagtcttactagacgataaaatggaagaaacgaatctgattcattttgccaatgcttcgtctgataaaaatagtctcgaagaacttgtggtcattgcaattcatactggacggatatactctatagttgaagccgtaagcgattcttctgctatgagcccctttgaggtggatgcctcatcaggctatgctacttatgcagaatattttaacaaaaagtatgggattgttttagcgcacccgaaccagccgttgatgaagttgaagcagagtcaccatgcgcacaaccttttagtcgacttcaatgaagagatggttgtgaagacagaaccaaaagctggcaatgttaggaaaagaaaaccgaatatccatgcgcatttgcctccagagcttttggctagaattgatgtaccgcgtgctgtgctaaaatcaatctacttgctgccttcagtgatgcaccgcctagagtctctaatgttggccagccagcttagggaagagattgattgtagcatagataacttcagtatatcaagtacatcgattcttgaagcagttacaacacttacatgccccgaatcattttcaatggagcggttggaactgctcggggattcagtcttgaagtatgttgcgagctgtcatctattccttaagtatcctgacaaagatgaggggcaactatcacggcagagacaatcgattatatctaactcaaatcttcaccgcttgacaaccagtcgcaaactacagggatacataagaaatggcgcttttgaaccgcgtcgctggactgcacctggtcaattttctctttttcctgttccttgcaagtgtgggattgatactagagaagtaccattggacccaaaattcttcacagaaaacatgactatcaaaataggcaagtcttgcgacatgggtcatagatgggtagtttcaaaatctgtatcagattgcgctgaggccctgattggtgcctattatgtaagcggtggattgtctgcttctctccatatgatgaaatggctcggtattgacgtcgattttgacccaaacctagtcgttgaagccatcaatagagtttctctacggtgttacattcctaaagaagatgagctcatagagttggagagaaagatccaacatgaattctctgcaaagtttcttttaaaagaggctatcacacactcctctcttcgtgaatcctattcatacgagagattagagtttcttggcgattctgtactggattttctaataacccgtcatctttttaacacctacgaacaaactgggcctggagagatgaccgatcttcgttctgcatgtgtaaacaatgaaaattttgcgcaagttgcagtgaaaaataacctgcatacccaccttcaacgctgtgctacggttctcgagactcaaataaacgactatctgatgtcctttcaaaagccagatgagactggtagatcaatcccttcaatacagggccctaaggctcttggagatgttgtggagagtatcgctggagcattgctgatcgatacgaggttagatctcgatcaagtgtggagagtctttgagccgttgctttctccacttgtaactccagataaacttcagcttcctccataccgggagctcaatgagctatgcgactctcttgggtatttctttcgagtgaaatgttcaaatgatggtgtcaaagcacaagccacgatccagttgcagctggatgatgttcttttaactggagatggatctgaacagacaaataaactggccttgggaaaagcagcttcacatctgcttacacaacttgagaagagaaacatttcacgtaaaacctcgctcggggataatcaaagttccatggatgtcaatcttgcttgcaatcatagcgacagagaaactctgacttcagagactactgaaatccagagtatagtgattccatttattggacctataaacatgaagaaaggcgggcctcgtggaactctacatgagttttgcaagaagcatctgtggccaatgcctactttcgatacctcggaagagaaatccagaactccgtttgaattcatagatggcggtgagaagcggactagcttcagcagtttcacatcgaccataaccctaaggatacccaatcgtgaggctgtgatgtatgctggagaagcaaggcctgacaagaagagttccttcgactctgcagtcgtggaattgctttatgagctcgagcgccgcaagatcgtcataatacaaaagtagactaatttagactgtactatatatgattc
//
by
@meso_cacase at
DBCLS
This page is licensed under a
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.
[Full Text]