2024-09-29 10:31:51, GGRNA.v2 : RefSeq release 225 (Jul, 2024)
LOCUS XM_015775890 4728 bp mRNA linear PLN 07-AUG-2018 DEFINITION PREDICTED: Oryza sativa Japonica Group protein argonaute 13-like (LOC4334374), mRNA. ACCESSION XM_015775890 VERSION XM_015775890.2 DBLINK BioProject: PRJNA122 KEYWORDS RefSeq; corrected model. 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_029258.1) 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_015775890.1. ##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## ##RefSeq-Attributes-START## frameshifts :: corrected 1 indel ##RefSeq-Attributes-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-131 AP014959.1 32813936-32814066 132-337 AP014959.1 32814466-32814671 338-473 AP014959.1 32814756-32814891 474-607 AP014959.1 32815005-32815138 608-717 AP014959.1 32815229-32815338 718-824 AP014959.1 32815410-32815516 825-963 AP014959.1 32815973-32816111 964-1080 AP014959.1 32816190-32816306 1081-1188 AP014959.1 32816498-32816605 1189-1260 AP014959.1 32816694-32816765 1261-1380 AP014959.1 32817031-32817150 1381-1546 AP014959.1 32817232-32817397 1547-1668 AP014959.1 32817481-32817602 1669-1776 AP014959.1 32817723-32817830 1777-1778 "NN" 1-2 1779-1809 AP014959.1 32817831-32817861 1810-1949 AP014959.1 32818050-32818189 1950-2012 AP014959.1 32818274-32818336 2013-2076 AP014959.1 32818416-32818479 2077-2212 AP014959.1 32818575-32818710 2213-2286 AP014959.1 32818815-32818888 2287-2381 AP014959.1 32818984-32819078 2382-2413 AP014959.1 32819175-32819206 2414-2544 AP014959.1 32819758-32819888 2545-2777 AP014959.1 32820009-32820241 2778-3585 AP014959.1 32820330-32821137 3586-3744 AP014959.1 32821229-32821387 3745-4728 AP014959.1 32822526-32823509 FEATURES Location/Qualifiers source 1..4728 /organism="Oryza sativa Japonica Group" /mol_type="mRNA" /cultivar="Nipponbare" /db_xref="taxon:39947" /chromosome="3" gene 1..4728 /gene="LOC4334374" /note="The sequence of the model RefSeq transcript was modified relative to its source genomic sequence to represent the inferred CDS: inserted 2 bases in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 7 ESTs, 3 Proteins, and 99% coverage of the annotated genomic feature by RNAseq alignments, including 57 samples with support for all annotated introns" /db_xref="GeneID:4334374" CDS 586..3738 /gene="LOC4334374" /note="The sequence of the model RefSeq protein was modified relative to its source genomic sequence to represent the inferred CDS: inserted 2 bases in 1 codon" /codon_start=1 /product="LOW QUALITY PROTEIN: protein argonaute 13-like" /protein_id="XP_015631376.2" /db_xref="GeneID:4334374" /translation="
MGLSLNIDISATSFFKPVTVIQFVEEFLNIRDTSRPLSDRDRVKIKKALRGVRIETNHQEDQIRRYKITGITPIPMSQLIFPVDDNGTRKTVVQYFWDRYNYRLKYASWPCLQSGSDSRPVYLPMEVCKIVEGQRYSKKLNNKQVTNILRATCQRPQQREQRIHEMVLHNKYTDDRFAQEFGIKVCNDLVSVPARVLPPPMLKYHDSGREKTCAPSVGQWNMINKKMINGGTVDNWTCLSFSRMRPEEVQRFCGDLIQMCNATGMSFNPRPVVDVRSSNPNNIENALRDVHSRTSELLAREGKGGLQLLIVILLEVSGSYGKIKRVCENDLGIVSQCCLPRHASRPNKQYLENVALKINVKVGGRNTVLERAFIRNGIPFVSEVPTIIFGADVTHSTXGEDSASSIAAVVASMDWPEITKYRGLVSAQSHRQEIIEDLFSVGKDPVKVVNGGMIREFLIAFRKKTGRRPERIIFYRDGVSEGQFSRVLLHEMDAIRKACASLEEGYLPPVTFVVVQKRHHTRLFPEVHGRRDMTDKSGNILPGTVKDRQICHPTEFYFYLCSHAGIQGTSRPTHYHVLYDENHFTADELQTLTNNLCYIYARCTHAVSVVPPAYYSHLAASHAHCCIKGHSSGSGSTPGNEHDIVKNSAPTLQILVKVLDFQIVPLTMKLKSSAEDIVALALSKHRVSLHDVYVYHGRRVIAKSLTLESLKADRDSTFLIMPRMRGGCNDTIGGFKCIPLEQHIRSLGDSLFEIIWIPPDLRVSGFCSYLIILGKPARKIICQLLKLLEIIHAANRFASRFTIADLVFLPDLGCIAFKKGVKIRWNLRREEYKLNMGDVASIISCWFRFNRRKLEALEAGIHELRPGQGDSPMFVDILVKDLRSPTHETGLSANYRGFYKNCSALRSCSAHMNLFTSLDIRKDFMVGSADWGNFVKALGDIKLPGWYRTAMRSPEMRKVLFFEFNDPHTGELRGKRYRALSVFSWLEFARIFIKHMKKGLCTDKQATALLCVIFSNIVPVVEKKLTYSYRPPAKEKSNESFTVEEILDPS"
misc_feature 634..978 /gene="LOC4334374" /note="PAZ domain, argonaute_like subfamily. Argonaute is part of the RNA-induced silencing complex (RISC), and is an endonuclease that plays a key role in the RNA interference pathway. The PAZ domain has been named after the proteins Piwi,Argonaut, and Zwille; Region: PAZ_argonaute_like; cd02846" /db_xref="CDD:239212" misc_feature order(781..783,826..828,859..861,871..873,925..927, 946..948,952..954) /gene="LOC4334374" /note="nucleic acid-binding interface [nucleotide binding]; other site" /db_xref="CDD:239212" misc_feature 1114..2460 /gene="LOC4334374" /note="PIWI domain, Argonaute-like subfamily. Argonaute is the central component of the RNA-induced silencing complex (RISC) and related complexes. The PIWI domain is the C-terminal portion of Argonaute and consists of two subdomains, one of which provides the...; Region: Piwi_ago-like; cd04657" /db_xref="CDD:240015" misc_feature order(1543..1545,1555..1557,1591..1602,1609..1611, 1633..1635,1642..1644,1654..1656,1666..1668) /gene="LOC4334374" /note="5' RNA guide strand anchoring site [active]" /db_xref="CDD:240015" misc_feature order(1759..1761,1765..1767,2014..2016,2434..2436) /gene="LOC4334374" /note="active site" /db_xref="CDD:240015" ORIGIN
ccatccttcatgttctaacctagctataatcttcaactctcactatccattcttccctccccattattcctcaacgcttcgccggcgattcccctctagactctagcgttcgccatggatgcccgccccatgtttcaatcaatcctgagtcaaaatcaagagcaacaaatagggaagtactcaatgagctcatcaagttgcatgggaagacatctcttggtggcaaattgcctgcttatgatggaagaaaaagtctctatactgctggttcactcccttttgaatcggaggagtttgtggttaagctaattgatcccgaaaagaaggataaagaaagggcggagagggagtacaagatcacaattcggattgctggcagaacagacttctaccacctccagcagtttttgcttggaagacagagggatatgccccaagaaaccattcaagtcagtcattgatgttgtcctcagttatgtcacagtgtccagatccttcttctctacccagtttggtcaccggggtgacattggtgagggacttgagtgttggagaggttactatcagagcctgcgcccaacacagatgggcctttcgctgaatatagatatatctgcaacatcattttttaagcctgtgacagtgatccaatttgtggaggagttcctgaacatacgtgacacctcaagacctttgtcagaccgggatcgtgtgaagataaagaaagcattacgtggggttcgcattgaaacaaaccaccaagaggaccaaatcagaagatacaaaataacagggattacccccattcctatgagccagctgatatttcctgttgatgataatgggacaaggaagactgttgttcagtacttctgggataggtacaattacagactgaagtatgcttcttggccctgcctacagtctggcagtgattctcgtcctgtatacttgcctatggaggtgtgcaagattgtagaagggcagaggtactccaagaagcttaacaacaaacaggtgaccaacatccttagagcaacctgtcaacgcccccagcagagggaacagagaattcatgagatggttctccacaacaagtatacagatgataggtttgctcaggagttcggcatcaaggtctgcaatgacctagtctctgttccagcccgtgtgctgcctccacccatgttgaagtatcatgattctggaagggagaaaacttgtgcacccagtgttggacagtggaacatgattaacaagaaaatgatcaatggaggaactgtggataactggacatgtctgagtttttcacgaatgcgtccagaggaggtacaaaggttctgtggtgacctgattcagatgtgcaatgccactggaatgtctttcaatccaagaccagttgtggatgtccggtcatcaaatcctaacaatatagagaatgctctgagggatgttcacagcagaacatcagaactgctagccagagagggaaagggaggcctgcagcttttaattgtaattctgcttgaagttagtggttcttatgggaaaattaaaagggtatgtgagaatgaccttggcattgtatctcaatgttgtttgccaaggcatgccagcaggccgaacaagcaatatttggaaaatgttgcactcaaaatcaatgtcaaggtcggagggcgcaacactgttcttgagcgagcctttatccgcaatggcataccatttgtgtcagaagtcccaacaatcatctttggtgctgatgtcacacactccaccnntggagaggactctgcatcatctattgctgcggttgtggcatcaatggattggcctgaaatcaccaaataccgaggtctggtctctgctcaatcacatagacaggagataatagaagatctctttagtgttggtaaagatccagtgaaggttgtaaatggtgggatgatcagggagttccttatcgcattccgcaagaagactggcagaaggcctgagaggataatcttctatagagatggtgtaagtgaaggtcagttcagccgtgtgcttcttcatgaaatggatgccatcagaaaggcttgtgcatctttggaggagggatatctaccacctgtcacatttgtagtagtccagaaaaggcatcacacaaggcttttcccagaggttcatgggaggcgagacatgactgacaagagcggaaacatccttcctggaactgtcaaggaccgccagatttgccatcctacagagttctatttctacctgtgtagccatgctggcatacagggtactagcaggccaactcattaccatgtcctttatgatgagaaccattttacagctgatgaacttcagaccctgaccaacaatctttgctatatctatgcacgatgcacccatgcagtgtctgtggtcccaccggcctattattctcatcttgctgcatcacatgcacactgctgcattaaaggacatagttcaggtagtggctcaacccctggcaatgagcatgacatagttaaaaattctgctccaacactccagatccttgtcaaagtgctggacttccaaatagttccactgacaatgaaactgaagtcttcagctgaagacattgtagctttagctctatcaaaacatcgcgtctctctgcatgatgtctatgtctaccatggtaggcgagttattgccaagagcttgactcttgaatctttaaaagcagacagggattcaacttttcttataatgccacgtatgaggggtggatgcaatgatacgattggcggtttcaagtgcattcctttagaacaacatatcagatcattaggtgattccctttttgaaatcatatggataccaccagatctgcgagtgagcgggttctgttcatatcttatcatacttggaaaaccagcaagaaaaatcatctgccaacttttaaagttgttggagattatccatgctgccaacagatttgcttccaggtttacaatagctgatctggtgttcctccctgatctgggttgtatagcttttaagaaaggagtaaaaataaggtggaacctcaggagagaggagtacaaactcaacatgggtgatgtagctagcataattagctgctggttcaggtttaaccgcaggaagcttgaagcgctggaagcagggatccatgagcttcgtcctggccaaggtgactctccaatgtttgttgatatattagttaaggatcttagaagccccacacatgagactggtctcagtgccaattatagaggtttctacaaaaattgtagtgctctgagatcttgttcggcccacatgaatttgttcacctctttggacattcgtaaggacttcatggttggttctgctgattggggtaattttgtcaaggctttgggtgatatcaaacttccaggctggtatcgtactgctatgcgatcacctgaaatgaggaaagtactcttctttgagtttaatgatccacatactggggagttacgaggcaaaagatatcgtgccttatcagttttttcatggcttgaatttgcgcggatatttattaagcacatgaagaaagggctgtgtaccgataaacaggcaacagcacttctctgtgtgatattctcgaatattgtacctgttgtggagaagaaacttacttacagttacaggccaccagctaaggagaagagcaatgaaagctttacagttgaagaaatcctggacccatcatagtcatagatgtcggaggaaagacagaatgttgctgtaagctacaaatctcagtatggttggaggatgactctgcaaaggttggagtatgtatgacaaagcgcgaagaaaaagctttcaaggaaagggtttctgaagtttttattggtttgaacagatcctggaaatgaattcatatggatggggagctatatcagttgtagaagttctttttttccttaagttttctgtgtttgtcagtttagcctggtagtgatagactgatagatcctgatgatgtagctgtgtgttagtttgaacgattttctgtttttaagctttttgttcgatgccctggaactgtccaggcatgagtgaccttgtagaaactttcacatttcttttaatagaaatggaggggtattgcccttttgataaagaaaaagggatataatatgttgggctggtattcctgttgatttcaattattctttttatagggcaagcaagggttaaatatggtaaaggtcaagtagttgctttgttagctgtcgtgacttgaagcttatgattgattttttttgacgcaaatcgaaatattctgtttgacgcaatgattgatttgaaatgatgtgttttttagcaacaaattccttttcaaacttttgactttggtttttcgtgtattttctctacagatgcagtggaagatgattgaatgtcttcctggaacatgtgcaagaaattgttaatcatctgcacccctcaaggactgagtgttggttaaaagtagttgttccctgcctccctgggagttagggctttagtagagtttagcgttactagttctcaggaggaatgatgtccagtgcctttcgttaagagttgtgtagaaactgaggtggtcgagtaatcttctctgctgagcgttttcgttttttagctggagtacccagcctaaacttggtttccctttaaagctggcaatacaagctgactctgtttccgtttaaa
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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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