2024-09-29 10:22:02, GGRNA.v2 : RefSeq release 225 (Jul, 2024)
LOCUS XM_015780808 4732 bp mRNA linear PLN 07-AUG-2018 DEFINITION PREDICTED: Oryza sativa Japonica Group endoribonuclease Dicer homolog 4-like (LOC4336362), transcript variant X2, mRNA. ACCESSION XM_015780808 VERSION XM_015780808.2 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_029259.1) annotated using gene prediction method: Gnomon, supported by mRNA and EST evidence. Also see: Documentation of NCBI's Annotation Process On Aug 7, 2018 this sequence version replaced XM_015780808.1. ##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..4732 /organism="Oryza sativa Japonica Group" /mol_type="mRNA" /cultivar="Nipponbare" /db_xref="taxon:39947" /chromosome="4" gene 1..4732 /gene="LOC4336362" /note="Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 22 ESTs, 4 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 37 samples with support for all annotated introns" /db_xref="GeneID:4336362" CDS 159..4481 /gene="LOC4336362" /codon_start=1 /product="endoribonuclease Dicer homolog 4 isoform X2" /protein_id="XP_015636294.1" /db_xref="GeneID:4336362" /translation="
MTASPIIGKGGSNKLNYTKCINSLEELLHAKVCSVDNEELESVVASPDMEVYFYGPVNHSNLTTICIKELDSLKLQSERMLRASLCDFKDSQKKLKSLWRLHENIIFCLQELGSFGALQAARTFLSFDGDKLDRREVDLNGSTSSFAHHYLNGATSILSRNKTDGSHAGSFDLEKLEEPFFSNKFSVLINVLSRYGLQENMKCIVFVKRITVARAISNILQNLKCLEFWKCEFLVGCHSGSKNMSRNKMDAIVQRFSSGEVNLLVATSVGEEGLDIQTCCLVVRFDLPETVASFIQSRGRARMTKSKYVVLLERENQSHEKLLNGYIAGESIMNEEIDSRTSNDMFDCLEENIYQVDNTGASISTACSVSLLHCYCDNLPRDMFFTPSPVFFYIDGIEGIICRLILPPNAAFRQADGQPCLSKDEAKRDACLKACVKLHKLGALTDFLLPGPGSRKNKVSVTNNSSNNKVEDDSLREELHEMLIPAVLKPSGLKLDSLSNLHFYYVKFIPIPEDRRYQMFGLFVINPLPVEAETLQVDLHLARGRIVKAGIKHLGKIAFEKEKMMLAHKFQEMCLKILLDRSEFTSPHVKLGNDVTLEINSTFYLLLPIKQKCYGDRFMIDWPAVERCLSSPIFKDPIDVSVHASYSSNESLRLLDGIFSKTDVVGSVVFSPHNNIFFFVDGILDEINAWSEHSGATYAEHFKERFRIELSHPEQPLLKAKQIFNLRNLLHNRLPETTESEGRELLEHFVELPPELCSLKVIGFSKDMGSSLSLLPSLMYRLENLLVAIELKDVMLSSFPEASQISASGILEALTTEKCLERISLERFEVLGDAFLKYVVGRHKFITYEGLDEGQLTRRRSDVVNNSHLYELSIRKKLQVYIRDQQFEPTQFFAPGRPCKVVCNTDVEVRLHQMDIHPDNRENCNLRCTRSHHWLHRKVIADVVESLIGAFLVEGGFKAAFAFLHWIGIDVDFNNPALYRVLDSSSINLSLMDYTDIAGLEELIGYKFKHKGLLLQAFVHPSFSQHSGGCYQRLEFLGDAVLEYVITSYLYSTYPDIKPGQITDLRSLAVGNDSLAYAAVEKSIHKHLIKDSNHLTSAISKFEMYVKLSNSEKDLLEEPACPKALGDIVESCIGAVLLDSGFNLNYVWKVMLMLLKPVLTFANMHTNPMRELRELCQCHGFELGLPKPMKADGEYHVKVEVNIKSKIIICTAANRNSKAARKFAAQETLSKLKNYGYKHRNKSLEEILIVARKRESELIGYNEDPIDVEADISVKMKSPHIHEENIPFQNTETSFTRSSKFHNQIIAGSGKHDVNNGRNNQPKLATQSGRLPSEATEKSNKKVYHGDMVHKTARSFLFELCAANYWKPPEFKLCKEEGPSHLRKFTYKVVVEIKGASATLLECHSDGKLQKKAAQEHAAQGALWCLKQLGHLPKEEDVRV"
misc_feature 687..1094 /gene="LOC4336362" /note="Members of the P-loop NTPase domain superfamily are characterized by a conserved nucleotide phosphate-binding motif, also referred to as the Walker A motif (GxxxxGK[S/T], where x is any residue), and the Walker B motif (hhhh[D/E], where h is a...; Region: P-loop containing Nucleoside Triphosphate Hydrolases; cl38936" /db_xref="CDD:476819" misc_feature 1056..1058 /gene="LOC4336362" /note="ATP binding site [chemical binding]; other site" /db_xref="CDD:350171" misc_feature 1260..1508 /gene="LOC4336362" /note="Dicer dimerization domain; Region: Dicer_dimer; pfam03368" /db_xref="CDD:460900" misc_feature 2067..2447 /gene="LOC4336362" /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(2190..2192,2250..2252,2262..2264,2316..2318, 2406..2408,2412..2414) /gene="LOC4336362" /note="nucleic acid-binding interface [nucleotide binding]; other site" /db_xref="CDD:239207" misc_feature 2586..3086 /gene="LOC4336362" /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(2634..2639,2646..2651,2658..2660,2667..2672, 2679..2684,2688..2696,2724..2726,3012..3014,3039..3041) /gene="LOC4336362" /note="dimerization interface [polypeptide binding]; other site" /db_xref="CDD:238333" misc_feature order(2634..2636,2643..2645,2655..2657,2982..2984, 2991..2993) /gene="LOC4336362" /note="active site" /db_xref="CDD:238333" misc_feature order(2643..2645,2982..2984,2991..2993) /gene="LOC4336362" /note="metal binding site [ion binding]; metal-binding site" /db_xref="CDD:238333" misc_feature 3195..3650 /gene="LOC4336362" /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(3252..3257,3264..3269,3276..3278,3285..3290, 3297..3302,3306..3314,3342..3344,3567..3569,3600..3602) /gene="LOC4336362" /note="dimerization interface [polypeptide binding]; other site" /db_xref="CDD:238333" misc_feature order(3252..3254,3261..3263,3273..3275,3537..3539, 3546..3548) /gene="LOC4336362" /note="active site" /db_xref="CDD:238333" misc_feature order(3261..3263,3537..3539,3546..3548) /gene="LOC4336362" /note="metal binding site [ion binding]; metal-binding site" /db_xref="CDD:238333" misc_feature 4233..4442 /gene="LOC4336362" /note="double-stranded RNA binding motif (DSRM) superfamily; Region: DSRM_SF; cl00054" /db_xref="CDD:444671" misc_feature order(4233..4235,4239..4241,4311..4313,4386..4394, 4401..4403) /gene="LOC4336362" /note="RNA binding site [nucleotide binding]; other site" /db_xref="CDD:380679" ORIGIN
tacttgatgagtgccatcatgcacaaccgcaaaaacggcatccatatgcgcaaattatgaaggagtaggcttttgggtccagttgcttgttgctcctgttgtatcaataggaattctataatagtaacagtgttgagaaattccctcgggtttttggcatgactgcttcaccaattattgggaaaggtgggtctaataaacttaactacacgaaatgtatcaacagtcttgaggaattacttcatgcaaaggtttgttcagttgataatgaagaacttgaaagtgtggttgcatctcctgatatggaggtgtacttttatggcccagttaatcactctaaccttaccacaatatgcatcaaagagcttgatagcttaaagcttcagagcgagcgcatgctaagagcgagcctatgcgatttcaaggattctcagaagaaactgaagtccttatggaggttgcatgaaaatattattttctgtttgcaagaacttggttctttcggagctctgcaagctgcgaggacctttttgtcctttgatggtgataagctagatagaagggaggtcgatcttaacggcagtacttccagcttcgcacatcactacctgaacggagcaacttctattcttagtcgcaacaaaacagatggttcccacgctggttcatttgaccttgagaagcttgaagaacctttcttctcaaataaattttctgttcttatcaatgttctttcgagatacgggttgcaggaaaacatgaaatgcattgtttttgtgaaaagaataactgttgcaagagcaatatcaaacattctccaaaacttgaagtgtcttgaattttggaaatgtgagtttcttgtgggctgccactcaggatcaaagaacatgtcaaggaataagatggatgctattgttcaaaggttttcttctggtgaggtgaatcttttggttgctacaagcgtaggtgaagagggacttgatattcagacgtgttgtcttgttgtgcgatttgatcttccagaaactgttgctagttttatccaatcaagggggcgtgcccggatgactaaatctaaatacgttgttctcctagagagagaaaatcagtctcatgaaaagttgcttaatggttatattgctggtgaaagcattatgaatgaagagatagactcaagaacttcaaatgatatgtttgattgcctcgaggagaacatttatcaagtggataacaccggtgcttccattagcactgcttgtagtgtatctctactacattgctactgcgacaaccttcctagggatatgttttttactccttccccagtgttcttctacattgatggcatcgagggaataatctgcagactaattcttccaccaaatgctgctttccgtcaagcagatggtcaaccatgtctgtcaaaagatgaagctaagagagatgcatgcttaaaggcatgcgtaaaacttcataaattgggtgctttgacagattttcttctgccgggtccaggttcaagaaagaataaagtatcagtaacaaataattcatcaaacaacaaagttgaagatgatagtctaagagaagagcttcatgagatgttaattcctgcagttctcaaaccttcgggattaaagttggattctttatcgaacttgcatttctactatgttaaatttattcccataccagaagataggcgatatcagatgtttggtctctttgtgatcaatccccttcctgtggaagctgaaacattgcaagttgatttgcatcttgctcgtggcaggattgtgaaagcaggaattaagcatttggggaaaatagcatttgagaaagagaagatgatgcttgcacacaagtttcaagagatgtgtctgaagattctcctggacagatctgagtttacttcaccccatgttaaattgggcaatgatgttacattagaaatcaattcaacattttaccttctgcttcccatcaagcaaaagtgttatggtgatagatttatgattgactggccagcagttgagcgctgtttatcatcaccgatttttaaagaccctatagatgtgtctgtgcatgcctcatattcatcaaatgagtctctgagacttcttgatggaatcttcagtaaaaccgatgtagttggcagtgtagtctttagtccccacaacaatatctttttctttgttgatggcattctggacgaaataaatgcttggagcgagcacagtggtgcaacttatgcagaacacttcaaggaaaggtttcgtattgagctatcacatcctgaacagccacttttgaaggctaaacagatcttcaacctgcgaaatttgcttcataatcggttaccggagaccacagaatcggagggccgtgaattactagagcacttcgtggagttacctccagaattatgctctttgaaggtcattgggttttcaaaagatatgggcagttccctgtccttgttaccttctttaatgtatcgtttggagaatttgctggtggctattgagttgaaggatgtgatgttatcttcttttccagaggcatctcaaattagtgcttctggtatacttgaagcgcttactactgagaaatgtttggagaggatatctttggagcgatttgaagtcctaggcgatgctttcttgaagtacgtagttggacgtcacaagtttattacatatgaaggacttgatgaagggcaattgaccaggagacgttctgatgtagtgaacaattcacatttatatgagttatcgatcagaaaaaaattgcaggtatacatacgggatcaacagtttgaaccgactcagttctttgctccaggaaggccttgtaaagttgtttgcaatactgacgtggaagtgagactacaccagatggatattcatccagataacagagaaaactgtaacctgagatgtacaaggtcacatcattggctgcataggaaagtgattgcagatgttgtcgaatcgcttattggagcatttcttgttgagggtggattcaaagctgcatttgctttcctgcattggattggaatagacgttgattttaataatccagctctctatagggtattagattcaagctccatcaatttatctcttatggactacactgacattgccgggcttgaagaattgataggttacaagttcaaacataagggtctacttctccaagcattcgtacacccttcatttagtcaacattctggaggctgctaccagagactggagtttcttggagacgctgttttggagtatgtgataacttcgtacctctactctacttatccggatataaaacctggtcaaataacagatctaagatcgttagctgttggtaatgattcgcttgcttatgcggcggttgagaaatctatccataagcatcttataaaggattcaaaccatctcacgtcagcaataagtaaatttgagatgtatgtgaagctctccaattcagagaaagacttgcttgaagaaccagcatgtcccaaggctcttggtgatattgttgaatcttgtattggcgcagtgcttttagattcaggcttcaacctgaactatgtttggaaggtaatgcttatgcttctaaagccagtattgaccttcgccaacatgcacactaatccgatgagagaacttcgagagctttgtcagtgtcatggatttgagttaggccttccgaaacctatgaaagctgatggagagtaccatgtcaaagtagaagttaacataaagagcaaaattatcatttgtactgcagcaaatcggaattcaaaagccgctagaaagtttgctgcacaagaaacactttctaaactgaagaattacggttataagcacagaaacaagtcccttgaggagattttgattgttgccaggaagagggaatcagaactgataggatataatgaagatccaatcgatgttgaggctgacatatctgtaaaaatgaagagtccacatatacatgaagagaacataccttttcaaaatacagaaacatctttcactaggagttctaaattccacaatcaaattatagcagggtctggcaaacatgatgtcaataatggaaggaacaatcaacccaagttggcaacacagagtggtcgtctgcctagtgaagcaacagagaaaagcaataaaaaggtgtatcatggtgacatggtacacaaaacagcaagatcattcctttttgaactatgtgctgcaaattattggaaacctcctgaattcaagttatgtaaagaggaagggccaagccaccttcggaagttcacttacaaggtggttgttgagatcaagggtgcttcggcgacccttttggagtgtcatagcgatggtaagcttcagaagaaggctgcacaagagcatgcggcacaaggggcgctctggtgtctcaagcaacttgggcacctaccaaaagaagaggacgttcgtgtatagcaacattgtcatgttttgggggtcacagtgcgaaagtacagtgatatttgtttgtccagagataaacgtgcctttctctcttttgctctgatgtccaacctcccttattaagggacgtgtataaattttcacttctccagtgccctttgaatggctagagttgtatagctagtccattattttccatgagacgtatattggtatatagttttattcttcaatagacgcatatagtattctttcaagttcca
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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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