2024-05-02 23:16:59, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_015765976 5541 bp mRNA linear PLN 07-AUG-2018 DEFINITION PREDICTED: Oryza sativa Japonica Group endoribonuclease Dicer homolog 3a-like (LOC4324864), mRNA. ACCESSION XM_015765976 VERSION XM_015765976.2 DBLINK BioProject: PRJNA122 KEYWORDS RefSeq. SOURCE Oryza sativa Japonica Group (Japanese rice) ORGANISM Oryza sativa Japonica Group Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa. COMMENT MODEL REFSEQ: This record is predicted by automated computational analysis. This record is derived from a genomic sequence (NC_029256.1) annotated using gene prediction method: Gnomon, supported by EST evidence. Also see: Documentation of NCBI's Annotation Process On Aug 7, 2018 this sequence version replaced XM_015765976.1. ##Genome-Annotation-Data-START## Annotation Provider :: NCBI Annotation Status :: Full annotation Annotation Name :: Oryza sativa Japonica Group Annotation Release 102 Annotation Version :: 102 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 8.1 Annotation Method :: Best-placed RefSeq; Gnomon Features Annotated :: Gene; mRNA; CDS; ncRNA ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..5541 /organism="Oryza sativa Japonica Group" /mol_type="mRNA" /cultivar="Nipponbare" /db_xref="taxon:39947" /chromosome="1" gene 1..5541 /gene="LOC4324864" /note="Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 7 ESTs, 2 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 59 samples with support for all annotated introns" /db_xref="GeneID:4324864" CDS 181..5136 /gene="LOC4324864" /codon_start=1 /product="endoribonuclease Dicer homolog 3a" /protein_id="XP_015621462.1" /db_xref="GeneID:4324864" /translation="
MNPLKRSLESSSQEHEAGKQKLQKRECQDFTPRRYQLDVYEVAMRRNTIAMLDTGAGKTMIAVMLIKEFGKINRTKNAGKVIIFLAPTVQLVTQQCEVIEIHTDFEVEQYYGAKGVDQWTGPRWQEQISKYQVMVMTPQVFLQALRNAFLILDMVSLMIFDECHHATGNHPYTRIMKEFYHKSEHKPSVFGMTASPVIRKGISSHLDCEGQFCELENLLDAKIYTVSDREEIEFCVPSAKEMCRYYDSKPVCFEDLSEELGVLCSKYDALITELQNKRSDMYKDADDITKESKRRLSKSIAKICYCLDDVGLICASEATKICIERGQEKGWLKEVVDATDQQTDANGSRLFAENSALHMKFFEEALHLIDKRLQQGIDMLLNSESGCVEAAKTGYISPKLYELIQIFHSFSNSRHARCLIFVDRKITARVIDRMIKKIGHLAHFTVSFLTGGRSSVDALTPKMQKDTLDSFRSGKVNLLFTTDVAEEGIHVPECSCVIRFDLPRTTRSYVQSRGRARQEDSQYILMIERGNVKQNDLISAIVRSETSMVKIASSRESGNLSPGFVPNEEINEYHVGTTGAKVTADSSISIVYRYCEKLPQDKCYSPKPTFEFTHHDDGYVCTLALPPSAVLQILVGPKARNMHKAKQLVCLDACKKLHELGALDDHLCLSVEDPVPEIVSKNKGTGIGTTKRKELHGTTRIHAWSGNWVSKKTALKLQSYKMNFVCDQAGQIYSEFVLLIDATLPDEVATLEIDLYLHDKMVKTSVSSCGLLELDAQQMEQAKLFQGLLFNGLFGKLFTRSKVPNAPREFILNKEDTFVWNTASVYLLLPTNPSFDSNVCINWSVIDAAATAVKLMRRIYSENKRELLGIFDSDQNVGDLIHLANKSCKANSLKDMVVLAVHTGKIYTALDITELSGDSAFDGASDKKECKFRTFAEYFKKKYGIVLRHPSQPLLVLKPSHNPHNLLSSKFRDEGNVVENMSNGTPVVNKTSNRVHMPPELLIPLDLPVEILRSFYLFPALMYRIESLTLASQLRSEIGYSDSNISSFLILEAITTLRCSEDFSMERLELLGDSVLKYAVSCHLFLKFPNKDEGQLSSIRCHMICNATLYKLGIERNVQGYVRDAAFDPRRWLAPGQLSIRPSPCECPVKSEVVTDDIHIIDDKAIVLGKACDKGHRWMCSKTIADCVEAIIGAYYAGGGLRAAMAVLKWLGIGAEIEEDLIVQAILSASVQTYLPKDNVFEMLEAKLGYSFSVKGLLVEALTHPSQQELGAKYCYERLEFLGDAVLDILLTRYLFNSHKDTNEGELTDLRSASVNNENFAQVAVKHNFHHFLQHSSGLLLDQITEYVNRLEGSSMDKVELLSDGLPKGPKVLGDIVESIAGAILLDTKLDLDVVWGIFEPLLSPIVTPENLELPPYRELIEWCGKHGYFVGINCRDQGDTVVATLDVQLKEVLLVRQGFSKKRKDAKAHASSLLLKDLEEKGLIIPKNASKTEQFEKHCGSTNPFNNLHVDAMDTQTPKPTKEKNAADSRNISDPLLGKPLHVIVKTSKGGPRIALYELCKKLQWPMPTMESEKVQPSFSSVCSSPGGSSQKATPQAFAFASTITLHIPNADVISLTGDGRADKKSSQDSAALFLLYELQRRGTLQLQEV"
misc_feature 268..864 /gene="LOC4324864" /note="DEXH-box helicase domain of endoribonuclease Dicer; Region: DEXHc_dicer; cd18034" /db_xref="CDD:350792" misc_feature order(268..279,286..288,337..360,475..477,664..666, 760..762) /gene="LOC4324864" /note="ATP binding site [chemical binding]; other site" /db_xref="CDD:350792" misc_feature order(439..444,511..516,589..591,595..600,607..609, 682..690) /gene="LOC4324864" /note="nucleic acid binding site [nucleotide binding]; other site" /db_xref="CDD:350792" misc_feature 1363..1761 /gene="LOC4324864" /note="C-terminal helicase domain of the endoribonuclease Dicer; Region: SF2_C_dicer; cd18802" /db_xref="CDD:350189" misc_feature order(1447..1455,1630..1632,1687..1689,1693..1695) /gene="LOC4324864" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:350189" misc_feature order(1642..1644,1648..1650,1723..1725,1729..1731) /gene="LOC4324864" /note="ATP binding site [chemical binding]; other site" /db_xref="CDD:350189" misc_feature 1939..2181 /gene="LOC4324864" /note="Dicer dimerization domain; Region: Dicer_dimer; pfam03368" /db_xref="CDD:427264" misc_feature 2731..3204 /gene="LOC4324864" /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(2899..2901,2983..2985,2995..2997,3049..3051, 3163..3165,3169..3171) /gene="LOC4324864" /note="nucleic acid-binding interface [nucleotide binding]; other site" /db_xref="CDD:239210" misc_feature 3325..3843 /gene="LOC4324864" /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(3376..3381,3388..3393,3400..3402,3409..3414, 3421..3426,3430..3438,3466..3468,3766..3768,3793..3795) /gene="LOC4324864" /note="dimerization interface [polypeptide binding]; other site" /db_xref="CDD:238333" misc_feature order(3376..3378,3385..3387,3397..3399,3736..3738, 3745..3747) /gene="LOC4324864" /note="active site" /db_xref="CDD:238333" misc_feature order(3385..3387,3736..3738,3745..3747) /gene="LOC4324864" /note="metal binding site [ion binding]; metal-binding site" /db_xref="CDD:238333" misc_feature 3901..4626 /gene="LOC4324864" /note="dsRNA-specific ribonuclease [Transcription]; Region: Rnc; COG0571" /db_xref="CDD:223644" misc_feature 4855..5106 /gene="LOC4324864" /note="double-stranded RNA binding motif (DSRM) superfamily; Region: DSRM_SF; cl00054" /db_xref="CDD:444671" misc_feature order(4855..4857,4861..4863,4981..4983,5050..5058, 5065..5067) /gene="LOC4324864" /note="RNA binding site [nucleotide binding]; other site" /db_xref="CDD:380679" ORIGIN
aattaggaaattaccctcgccattttgacgtagtggcctctgtcgtccgtgagttaccctgacccctcctcgtcagtttgcccgccgcggcgccgccgccgccgccgccgatccccatccatcccgcgagcgagcagggcgccgtcgttcgtcctgctgcatccgccgcatcctgtaaacatgaaccctttaaagaggtcattggaatcatcttctcaggaacatgaagcaggcaaacagaaactgcagaagagagagtgtcaagatttcactcccagaagatatcagcttgatgtctatgaggttgcaatgcggagaaacacgattgcgatgcttgacacaggagccgggaagacaatgattgctgtgatgcttatcaaggagttcggaaagataaacagaacaaagaatgctggaaaagtcatcatatttcttgcaccaacagttcaacttgttacacagcaatgcgaggtgattgaaatccacacagattttgaggtagaacaatactatggtgcaaagggggttgatcaatggacaggtcctagatggcaagagcaaatctcaaaataccaggtcatggtcatgacaccacaggtgttcctacaagctttacgcaatgctttcttaatcttggacatggttagtctcatgatatttgatgaatgccatcatgcaactggaaaccacccttatacaagaataatgaaggagttctatcacaaatcagaacataagccaagtgtgtttggtatgacagcatcacctgttataagaaaaggtatctcttctcatttggattgtgaaggtcagttctgtgaattggagaacctgttagatgctaagatctacacagtttcagatagagaagagatagagttttgtgttccttctgcaaaagaaatgtgcaggtactatgactcgaaaccagtttgttttgaagatttgagtgaagaattgggagttttatgttccaagtatgatgcattgataacagagttgcagaataagcgaagcgacatgtataaagatgctgatgatataacaaaagaatcaaagagacgcctttctaaatctatagcaaaaatttgctactgccttgatgatgttggtcttatttgtgcaagtgaggccacaaaaatctgcattgaaaggggccaggagaaaggttggctgaaggaagtagttgatgccacagatcagcaaactgatgcaaatggatcacgcctatttgcagaaaattcagcgcttcatatgaagttctttgaggaagccttgcatttaattgacaaacgcctccaacaaggtatcgacatgcttctaaactcagaaagtggatgtgttgaagcagcaaagacgggctatatttccccaaagctctatgaactcatccagatctttcactcttttagtaactctcgtcatgctcgatgcctcatttttgttgatcgaaagatcactgctagagtcattgaccggatgattaagaaaattggccaccttgcacatttcacagtttcttttcttactggagggagatcttcggtggatgctctgacacccaaaatgcagaaggatacattggattcatttcgctctggaaaggtgaacttactatttactacagatgttgctgaagagggtatccatgtcccagaatgctcttgtgtaatacgatttgatttgccaaggacaacacgtagctatgtgcagtcacgtggacgagcacgccaggaagactctcagtacattctcatgattgaacgggggaacgtgaagcaaaatgatttgatatctgcaattgtgagaagtgagacttcaatggttaagattgcttcaagcagagagtctggaaatctgtcgcctggttttgttcccaatgaagaaataaacgaataccatgtaggcacaacaggagcgaaagtaactgctgattcaagcatcagtattgtctaccgatactgtgagaagcttccgcaggataagtgctactccccaaaacctacatttgagttcactcatcatgatgatggatatgtgtgtacattagcattaccaccaagtgctgtgcttcaaattctggtgggcccaaaagcaagaaacatgcacaaagcaaaacagctcgtttgccttgatgcatgtaagaagttgcatgagctaggagcacttgatgaccacctttgtctatctgttgaagatccagttccagaaattgtaagcaaaaataagggtactggtataggtacaaccaaacggaaggagctacatggtacaacaagaattcatgcttggtctggcaattgggtgtcaaagaaaactgcactcaagcttcaaagctacaaaatgaattttgtttgtgaccaagctggtcagatttactctgaatttgttctgttaattgatgcaactttaccggatgaagtcgctactttggagattgacctatatttgcacgacaagatggtcaaaacttcagtttcttcttgtggacttcttgagttggatgctcaacagatggaacaagcaaagttgtttcaagggcttctcttcaatggtttgtttggaaagctgtttactagatcaaaagtacctaatgctccgagggaattcattcttaataaagaggatacatttgtgtggaacactgcgagtgtatatttgcttttaccaacaaatccttcttttgactccaacgtttgtattaattggagtgtcattgatgcggcagctacggcagttaaacttatgagaaggatttattctgagaataaaagagaattacttggaatatttgattctgaccaaaatgttggagatttaattcatttagctaacaagtcgtgtaaggctaacagcctcaaagatatggtagttctagcagttcacactgggaagatatatactgctcttgatattactgaattatctggcgatagcgcttttgatggtgcatctgataagaaagaatgtaaattccggacattcgcagaatatttcaaaaagaagtatggcatagtacttcgccacccctcacagccactactagttttgaagcctagtcataatcctcacaaccttctttcctcgaagttcagggatgaaggtaatgttgtggagaatatgagtaatggcacaccagttgtaaataaaacaagcaaccgtgtccacatgcctcctgagttgctgattccccttgatttacctgtggaaattttgagatcattctatttgtttccggctttgatgtatcggattgagtcattaacgttagctagtcaactaagaagtgaaattggatacagcgattctaatatatcaagtttcctgattctggaagctattacaacgcttaggtgctctgaggatttctctatggagcgtctagaattattgggagactctgtattgaagtatgcagtgagttgtcatcttttcctgaaatttcctaataaggatgaggggcagctatcatccataaggtgccatatgatttgtaatgccacactttataagcttggaattgaacgcaatgtacagggttacgtacgtgatgctgcatttgatcctcgtcgatggctagcaccaggacagctctctattcgtccatctccttgtgaatgccctgtaaaatctgaggttgtaactgacgatattcatatcattgatgacaaggctattgttctaggcaaggcgtgtgacaagggacacagatggatgtgttccaaaaccattgctgattgtgttgaggctattattggggcatattatgcagggggtggtttaagagcagccatggcagttctcaaatggttgggcatcggggctgaaattgaagaagacttgattgtgcaggccatattgagtgcttctgtgcagacttatcttccaaaagacaatgtatttgaaatgcttgaagcaaaactaggctattctttctcggtgaaaggtcttttggtagaggctctgactcacccatcacagcaggagttaggtgcaaaatactgctacgagcgcctagagttcctcggtgatgcggtcttagacattctgttaacaagatatcttttcaatagtcataaagacactaatgagggggagttgacagacttacgttctgcatcagtcaataatgaaaactttgcacaagttgcagtaaagcacaacttccatcactttctccagcattcttctgggcttctgttagaccaaattactgaatatgtgaataggttggaaggttcatccatggacaaagttgaactgttatcagatggactcccaaaagggcctaaagtccttggtgatattgtagaaagtattgcaggtgcaattcttttagacaccaaacttgatttggatgtagtctggggtatttttgaaccccttctttccccaattgtcacacctgagaatctggagttacctccatacagagagcttatcgaatggtgtggcaaacatgggtattttgtaggaattaactgtagagatcaaggagacacagtagtggctactcttgatgtacagctcaaagaggtgcttcttgtgaggcaaggttttagcaagaaaagaaaagatgcgaaagcgcatgcatcttccttactgctcaaagatctcgaggaaaaaggactaataatcccaaagaatgcaagcaagacagaacaatttgaaaagcattgtggcagcactaatcccttcaacaatttgcatgtcgatgcaatggatacacagactccaaaaccaaccaaggaaaaaaacgcagctgattcaaggaacatttctgatcccctgcttggtaaaccattgcacgtgattgtgaaaacgagtaaaggaggaccacgcattgcattatatgagttgtgtaaaaagttgcaatggccaatgcctacaatggaatctgagaaagtacaaccaagctttagcagcgtgtgctcctcccctggtggttcctctcagaaagctaccccccaagcgttcgctttcgcttcaaccattacattgcatataccaaatgctgatgtgatcagcctcacaggagatggccgtgcagataagaagagctcacaggattctgctgccctgttcttgctctatgagcttcagcggcgaggtactttgcaactccaggaggtgtgaaggaacgacaactgattgcttgccaaccagttgcttggaagttggaataatagaccaaccagttgcttgccaccactcagctttgtacatcttctccagtgttcaccttctgaattatgataagagggtacccaaagaatggagaacagctgacctggttctggtgtgtgtcagttgttatgtgtgtttgtccatatgttatctgcgtagaaactgaataagcccccaaagttgttgctgacgataaacacgcaaatatcatgcccctgtagcctgtaggtgttaaaccaattgttcaaggataaaaagagagaccattttcaaatcatgtttccttgttctattattacataaacataccggactttttttcttataaaaactactccagtaaacatttgatca
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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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