LOCUS       XM_066303918            4694 bp    mRNA    linear   PLN 10-JUL-2024
DEFINITION  PREDICTED: Oryza sativa Japonica Group endoribonuclease Dicer
            homolog 2b (LOC136351659), transcript variant X1, mRNA.
ACCESSION   XM_066303918
VERSION     XM_066303918.1
DBLINK      BioProject: PRJNA1123306
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_089043) annotated using gene prediction method: Gnomon,
            supported by mRNA and EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI RefSeq
            Annotation Status           :: Full annotation
            Annotation Name             :: GCF_034140825.1-RS_2024_06
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 10.3
            Annotation Method           :: Best-placed RefSeq; Gnomon;
                                           cmsearch; tRNAscan-SE
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            Annotation Date             :: 06/21/2024
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..4694
                     /organism="Oryza sativa Japonica Group"
                     /mol_type="mRNA"
                     /db_xref="taxon:39947"
                     /chromosome="9"
     gene            1..4694
                     /gene="LOC136351659"
                     /note="endoribonuclease Dicer homolog 2b; Derived by
                     automated computational analysis using gene prediction
                     method: Gnomon. Supporting evidence includes similarity
                     to: 1 mRNA, 12 ESTs, 736 long SRA reads, 3 Proteins, and
                     100% coverage of the annotated genomic feature by RNAseq
                     alignments, including 48 samples with support for all
                     annotated introns"
                     /db_xref="GeneID:136351659"
     misc_feature    1
                     /gene="LOC136351659"
                     /experiment="COORDINATES: cap analysis [ECO:0007248]"
                     /note="transcription start site"
     CDS             183..4316
                     /gene="LOC136351659"
                     /codon_start=1
                     /product="endoribonuclease Dicer homolog 2b isoform X1"
                     /protein_id="XP_066160015.1"
                     /db_xref="GeneID:136351659"
                     /translation="

MGGPLTAAGGRGDGGAKAVEPLRPPPPPDPKTMARWYQLEALERAVRGNTLAFLETGSGKTLIAVMLLRAYAHRVRRPDSRRFAVFLVPTVVLVGQQARVVEQHTDLVVKQFCGEMGVDFWDAATWRSQLEDGEVLVMTPQILLDNLRHSFFRLQDIALLIFDECHHARGNTPYACIFKEFYHPQLNSSASDPLPRIFGMSASLIYSKDLNQHNYSKQISEIENLMNSKVYTVDSESALSEYIPFASTKIVHFDDSNISSELHANILSCLNRLTKKHIEALDRKLHGSSLENAKQRISKLHRTFVYCLYNLGVWLAAKAAEVQSYEENSLSFWGETLDKNVEGFIRNYSEEVHRELSCFLKNGHIGEKFPADSQDGILTPKVHCLIRTLLQYRHMQDLRCIVFVQRVITSIVLEPLLSSIHQMSGWNVKHMAGSRPGLLSQSRKNHTEIVESFRKGKVHIIIATQILEEGLDVPSCNLVIRFDPSATVCSFIQSRGRARMENSDYLLLVGRGDVEAHTNAKKFLASGQIMREESLRLGSISCQPLENTLCEDTYYRVESTPAFDIDKASGTCTLHLPKSSPVQTVNVEGEGSILKETVCLKACQELHAIGALTDSLLPELDVPCDEEPDIVVENKIEQPSYFPEEFVDNWRSFSRLGIYYCYKISLEGCPKTASPTDILLALKCDLGSDFTSSSFKLPGGQDNASVTMKYVGIIHLNQEQVIIARRFQTTILSFLIGDDHLEVSNGIKYFHEMQVPIGVVYLLLPLVSGRIDWCSMKFSSSPIYEANNKHMTHCHSCRDIDLLQTKDGPFCRCILKNSIVCTPHNNIFYVISGFLDLDANSRLPQHDGTVVTYKDYFKTRHGLTLTFENQPLLAGSKHVKVRNFLHNYYYKKEKEPGDRYSVELPPELCRIIMSPVSANNLHIFSYVPSIMFRIQCMLLSVKLKVQLGPTVQQFDVPVLKILEALTTKKCQEEFSQESLETLGDSFLKYVTTRHLFSEYRLQHEGILTKMKKNLISNAALCQLACSSNLVGYIHAEEFNPRDWIIPCLDYDERGNKKISFLAPNGMYSQRKMSIKSKRIADSVEALIGAYLSTAGEKAAFLLMKSLGMNIEFHTEIPVERKISMKAEEFIDVRSLEGMLGYKFNDSLLLLEALTHGSYQTSGPTSCYQRLEFLGDAILDHLFTEYYYSKYPDCTPELLTDLRSASVNNNCYAHAAVKSGLNKHILHSSSELHRKMSYYLGQSFTGPSYGWEAGIGLPKVLGDVIESIAGAIYLDSKCDKEVVWRSMKRLLEPLATPETIEPDPVKGLQEFCDRRSFKITYEKNHVDGVSSVIARVKAGETTYSATKSGPCKLAKKLASKAVLKDLIAGHKDTEAAAV"

     misc_feature    282..887
                     /gene="LOC136351659"
                     /note="DEXH-box helicase domain of endoribonuclease Dicer;
                     Region: DEXHc_dicer; cd18034"
                     /db_xref="CDD:350792"
     misc_feature    order(282..287,294..296,345..368,483..485,672..674,
                     786..788)
                     /gene="LOC136351659"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:350792"
     misc_feature    order(447..452,519..524,597..599,603..608,615..617,
                     690..698)
                     /gene="LOC136351659"
                     /note="nucleic acid binding site [nucleotide binding];
                     other site"
                     /db_xref="CDD:350792"
     misc_feature    1311..1709
                     /gene="LOC136351659"
                     /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    1671..1673
                     /gene="LOC136351659"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:350189"
     misc_feature    1824..2036
                     /gene="LOC136351659"
                     /note="Dicer dimerization domain; Region: Dicer_dimer;
                     pfam03368"
                     /db_xref="CDD:460900"
     misc_feature    2538..2927
                     /gene="LOC136351659"
                     /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(2667..2669,2739..2741,2751..2753,2805..2807,
                     2886..2888,2892..2894)
                     /gene="LOC136351659"
                     /note="nucleic acid-binding interface [nucleotide
                     binding]; other site"
                     /db_xref="CDD:239210"
     misc_feature    3063..3527
                     /gene="LOC136351659"
                     /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(3111..3116,3123..3128,3135..3137,3144..3149,
                     3156..3161,3165..3173,3201..3203,3453..3455,3480..3482)
                     /gene="LOC136351659"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238333"
     misc_feature    order(3111..3113,3120..3122,3132..3134,3423..3425,
                     3432..3434)
                     /gene="LOC136351659"
                     /note="active site"
                     /db_xref="CDD:238333"
     misc_feature    order(3120..3122,3423..3425,3432..3434)
                     /gene="LOC136351659"
                     /note="metal binding site [ion binding]; metal-binding
                     site"
                     /db_xref="CDD:238333"
     misc_feature    3624..4076
                     /gene="LOC136351659"
                     /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(3684..3689,3696..3701,3708..3710,3717..3722,
                     3729..3734,3738..3746,3774..3776,3996..3998,4029..4031)
                     /gene="LOC136351659"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238333"
     misc_feature    order(3684..3686,3693..3695,3705..3707,3966..3968,
                     3975..3977)
                     /gene="LOC136351659"
                     /note="active site"
                     /db_xref="CDD:238333"
     misc_feature    order(3693..3695,3966..3968,3975..3977)
                     /gene="LOC136351659"
                     /note="metal binding site [ion binding]; metal-binding
                     site"
                     /db_xref="CDD:238333"
     misc_feature    4089..4286
                     /gene="LOC136351659"
                     /note="double-stranded RNA binding motif (DSRM)
                     superfamily; Region: DSRM_SF; cl00054"
                     /db_xref="CDD:444671"
     misc_feature    order(4104..4109,4113..4115,4173..4175,4230..4235,
                     4242..4244)
                     /gene="LOC136351659"
                     /note="RNA binding site [nucleotide binding]; other site"
                     /db_xref="CDD:380679"
     polyA_site      4694
                     /gene="LOC136351659"
                     /experiment="COORDINATES: polyA evidence [ECO:0006239]"
ORIGIN      

gagcccaacacgcgcgcgcgcgactcgtaggaattcggttcggattcgtgcgtgcaccgaaggaggcggaggcggaggcggcccaagcgtcggcgccacctcactctcccacccccatcccgccgcctcccccgattcctcccccaaacccctcctcctcctccgccgccgctgccgtcgccatgggtggccccctcaccgccgccggaggtcgaggagatgggggcgccaaggcggtggaaccgctccggcctccgccgccgcccgacccgaagacaatggccagatggtaccagctggaggcgctggagcgggcggtgcgggggaacaccctggcgttcctggagaccgggagcgggaagacgctcatcgcggtgatgctgctccgggcgtacgcgcaccgcgtgcggaggccggactcgcgccgcttcgccgtcttcctcgtccccaccgtcgtcctcgtgggccagcaggcgcgcgtcgtcgagcagcacaccgacctcgtcgtcaagcagttctgcggcgagatgggggtcgacttctgggacgccgccacctggcgatcccaactggaggacggcgaggtgctcgtcatgacgccgcagatcctgctcgacaacctccgccacagcttcttccgcctccaggacatcgcgctgctcatcttcgacgagtgtcaccacgccaggggcaatacaccgtacgcctgcattttcaaggaattttatcacccccagttgaattctagtgcgtcagaccctctgccaaggatatttgggatgtctgcttcgctcatttattcaaaagatttgaatcagcacaattattcaaagcaaatttctgagattgagaatctcatgaattccaaggtgtacactgttgatagtgaatcagctttgtcggagtacataccatttgcttctacaaaaatagtgcactttgacgattccaacatttcatctgagctgcatgccaatattctcagttgtttgaatagattgacaaaaaagcatatagaagctctggacagaaaactacatggttcatctctggaaaacgctaagcaaaggatatcaaaattgcatcgtacatttgtatattgtttatataatctaggagtatggctggcagcaaaggctgctgaggtacaatcatacgaggaaaacagcctatccttctggggtgaaacattggataaaaatgttgagggcttcattagaaactacagcgaagaagtacatagagaactttcatgtttcttgaagaatggtcatattggtgaaaaatttccagctgattcgcaagatgggatattgacacccaaagttcattgccttattcgaactcttctgcagtacaggcatatgcaagacttaagatgcattgtgtttgttcagagagttatcacaagcatagtattagagcccctactttcatctattcatcaaatgtctgggtggaatgttaagcacatggcaggaagccgtcctggtttgctatctcagagcaggaaaaatcatacagaaattgttgaatcttttcgaaaaggaaaggtacatataattattgccacacaaattttggaggagggtttagatgtgccaagttgtaacttggtaattcgctttgatccatcagcaacagtatgcagctttatacagtcccgtggtcgagctaggatggaaaactctgactatcttttacttgtcggaaggggggatgtggaagctcatactaatgcaaagaagtttctcgcaagtgggcaaataatgcgggaggaatctctgagattgggatcaatttcttgtcaaccacttgagaacaccttgtgcgaggatacctattaccgtgtcgagtcaactccagcgttcgatatagacaaggcatctggcacatgcactctgcatcttcctaagagcagtcctgtgcagacagttaatgtagaaggagaaggttctattctcaaggagacagtttgtcttaaggcctgccaagaactacatgccattggtgcactcacagattctcttttaccagaattagatgttccatgtgatgaagaacctgacatcgttgttgagaacaaaattgagcagccttcttactttccagaagaatttgtggataattggcgctccttttctcgtcttggcatatattattgctataagatctcattggaaggatgtcccaaaacagcttctccaactgacatactgttagctttgaagtgtgatttgggatctgactttacttctagctcatttaaattgccaggtgggcaagacaatgctagtgttaccatgaaatatgttggcatcatccatctcaatcaagaacaggtaattattgctagaagatttcagacaactattctttcgtttcttattggtgatgaccatttggaggttagcaatggtattaaatacttccatgagatgcaagtgcctattggagtagtctatctacttctgcctttagtttctggcagaattgattggtgcagtatgaagttctcatcctcaccaatatatgaagctaacaacaaacatatgacacattgccattcttgtagagatattgatttactgcagacaaaagatggtcctttctgcaggtgcatccttaaaaattccattgtgtgtacccctcataataacatcttttatgttattagtgggtttcttgacttagatgcaaattcccgtttgcctcaacatgatgggactgttgttacctacaaagattattttaagactaggcatggtcttactttgacttttgaaaatcagccgctcttggctggcagtaaacatgtgaaagtgcggaacttcctccacaactactactataaaaaagaaaaagaacctggtgatagatatagtgttgagttgccacctgaactctgcagaattatcatgtcaccagtgtccgccaataatttgcacatcttctcatatgttccttccataatgttccgcatccagtgcatgcttctttctgtgaaattaaaggtccaattaggcccaacagtgcagcagtttgacgtaccggttttgaagatcctggaagcattaacaacaaagaaatgccaagaagaattttcacaggaatcattagaaacacttggggattctttcctcaaatatgttacaactcggcacctttttagtgaatacaggcttcaacatgaaggcatattaacaaaaatgaagaaaaacttgatctccaatgcagctctgtgccagctggcctgcagcagtaatcttgtgggttacattcatgctgaggagtttaatccaagagattggatcatcccttgcttggactatgatgagcgtggtaacaaaaaaatttcctttctggcacccaatggtatgtacagccaaaggaaaatgtctattaaaagtaagaggattgcggattcagttgaggccttaattggggcttacctcagtactgctggggaaaaggcagcatttcttttgatgaaatcattagggatgaatatagaatttcacactgaaattccagttgaaaggaaaatttcaatgaaagctgaagagttcattgatgtgaggagcttagagggaatgcttggttacaagttcaatgattctttattattgctcgaagcattgacacatggctcatatcagacttctggccctacttcatgctatcagaggctcgagtttcttggagatgctattttggatcatcttttcactgaatattactacagcaaataccctgactgtactccagaattgttgacagatcttagatctgcctctgtgaacaacaattgttacgcgcatgcagctgttaaatcaggattaaacaagcatatccttcactcatcatcagaactgcataggaagatgagctactaccttgggcagtcatttacaggtccatcttatggctgggaagcgggcattggtctaccaaaggttctcggggatgtgattgaatcaatagctggtgcaatttatctcgacagcaagtgtgacaaggaggttgtttggagaagcatgaagcggctattggaacctcttgccacccccgaaaccatcgagcctgacccggtgaaagggctgcaagaattttgtgatcgtagatcattcaaaataacctacgaaaaaaaccatgttgatggagtctcatcggtcattgctcgggtgaaggctggagagactacatactccgcaacaaaatcaggtccctgcaagttggcgaaaaagttggcatcaaaggctgtgcttaaagatctgattgctggtcacaaagatacagaggctgctgcagtatagtgatgcttaactatttaagcgtgcaacagtagctaacaattgatatagatagttgcgcacaatagaaaagttttggttggattcatacatgtaatttggaaatgctcctttttgtgtgctcgcaaacgatgcgtgtgaacggcctcatgaattctggtaggttttcatgcttcaaacttacaagtatcgcaattttgtaaattacaaatacgggcatagcacacctgcccatgccatgcagtagtttttttttcctcgaaatagtagcattagttgtatattactcatagcatcagattgtacagaaagcatgccagcaaaaacgaaaaaatgtacagacagcattttgttcgcatcaagggaaaacttgttttaaga

//