2024-09-29 10:36:43, GGRNA.v2 : RefSeq release 225 (Jul, 2024)
LOCUS NM_001409344 3003 bp mRNA linear PLN 18-FEB-2024 DEFINITION Oryza sativa Japonica Group protein argonaute 17-like (LOC4328436), mRNA. ACCESSION NM_001409344 XM_015768522 VERSION NM_001409344.1 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. REFERENCE 1 (bases 1 to 3003) AUTHORS Pachamuthu,K., Swetha,C., Basu,D., Das,S., Singh,I., Sundar,V.H., Sujith,T.N. and Shivaprasad,P.V. TITLE Rice-specific Argonaute 17 controls reproductive growth and yield-associated phenotypes JOURNAL Plant Mol Biol 105 (1-2), 99-114 (2021) PUBMED 32964370 REMARK GeneRIF: Rice-specific Argonaute 17 controls reproductive growth and yield-associated phenotypes. REFERENCE 2 (bases 1 to 3003) AUTHORS Kikuchi,S., Satoh,K., Nagata,T., Kawagashira,N., Doi,K., Kishimoto,N., Yazaki,J., Ishikawa,M., Yamada,H., Ooka,H., Hotta,I., Kojima,K., Namiki,T., Ohneda,E., Yahagi,W., Suzuki,K., Li,C.J., Ohtsuki,K., Shishiki,T., Otomo,Y., Murakami,K., Iida,Y., Sugano,S., Fujimura,T., Suzuki,Y., Tsunoda,Y., Kurosaki,T., Kodama,T., Masuda,H., Kobayashi,M., Xie,Q., Lu,M., Narikawa,R., Sugiyama,A., Mizuno,K., Yokomizo,S., Niikura,J., Ikeda,R., Ishibiki,J., Kawamata,M., Yoshimura,A., Miura,J., Kusumegi,T., Oka,M., Ryu,R., Ueda,M., Matsubara,K., Kawai,J., Carninci,P., Adachi,J., Aizawa,K., Arakawa,T., Fukuda,S., Hara,A., Hashizume,W., Hayatsu,N., Imotani,K., Ishii,Y., Itoh,M., Kagawa,I., Kondo,S., Konno,H., Miyazaki,A., Osato,N., Ota,Y., Saito,R., Sasaki,D., Sato,K., Shibata,K., Shinagawa,A., Shiraki,T., Yoshino,M., Hayashizaki,Y. and Yasunishi,A. CONSRTM Rice Full-Length cDNA Consortium; National Institute of Agrobiological Sciences Rice Full-Length cDNA Project Team; Foundation of Advancement of International Science Genome Sequencing & Analysis Group; RIKEN TITLE Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice JOURNAL Science 301 (5631), 376-379 (2003) PUBMED 12869764 REMARK Erratum:[Science. 2003 Sep;301(5641):1849] COMMENT VALIDATED REFSEQ: This record has undergone validation or preliminary review. The reference sequence was derived from AK106247.1. On Jul 15, 2022 this sequence version replaced XM_015768522.2. ##Evidence-Data-START## Transcript exon combination :: AK106247.1 [ECO:0000332] RNAseq introns :: mixed sample support SAMD00008650, SAMN02716058 [ECO:0006172] ##Evidence-Data-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-3003 AK106247.1 1-3003 FEATURES Location/Qualifiers source 1..3003 /organism="Oryza sativa Japonica Group" /mol_type="mRNA" /db_xref="taxon:39947" /chromosome="2" /map="2" gene 1..3003 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /note="protein argonaute 17-like" /db_xref="GeneID:4328436" exon 1..142 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 143..390 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" CDS 178..2808 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /note="putative leaf development protein Argonaute; P0669G09.26; LOC_Os02g07310" /codon_start=1 /product="protein argonaute 17" /protein_id="NP_001396273.1" /db_xref="GeneID:4328436" /translation="
MESQRMTWLYDRHHSLKHNKAERQAILSTYRLAKRPNLSSEGMIGESCIVRTNCFSVHLESLDDQTIYEYDVCVTPEVGINRAVIRELVKQQKDSGLGGRLPAYDGRKRLYTSGPLPFDSHRFLVLLDSIEDSPEESRHLRVRDFVVTLKFAAKISLWTLRKFRGGKPNRESRAALRALDVVLKELPTARYTQFAGSFYSPNLGECRQLCKVLESWRGFHQRIQATQMGLQLNIDVSSSVFIKPVPVVDYVAQLLNEDILLDRPLCSTEFLKIKEALEGLKVQINGILFNTYHVQDLVHQAASFPVNFSIQYPSLPCLKVAHFGETIFLPLEVCKIAEGQCHQKQLNAKHMAALLQVARQPPNERDYNILQTVHQNKYQEDPHAKEFGIKIEEKLVSIKSRILPAPWLKFHDSGETTEFLPQLGIWNMMHKKMINGGRVKSWACVNFCWSVREYAARNFCYDLGFMCRESGMVFSVKPVLPLVIAKPGCVESALRTLHDDVMDILRPQGRKLDLLIVILPNNNGSLYGDVKRICETDIGLISQCCLAKHVLKMNKWYLASVALKINAKMGGRNTVLVDALEMRLPHVRDTPTIVFGAHVTHPHPGKANSSSIAAVVASQDWPEVTKYAGLISVQACHQESIQGLFKVQDDPERGTTTSGMIKEHLMSFYRATKRKPGRIIFYRDGVSKGQLPQALMHELGAIKMACASMGPDYNPLVTYVVLQKCRHTRLFADYYNANTHDSTANIRAGTVVDSNICQPNQFDFYLCSHRSTQGTKRPRYYHVLWDENDFLAGSFQELTNYLCYTSATCTQSISVVAPVHYARLLSSRARCYIKPRSIGDSTSHTSLPSEEDSSAASETGSLLPIKDNLKGAMFFC"
misc_feature 490..726 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /note="N-terminal domain of argonaute; Region: ArgoN; pfam16486" /db_xref="CDD:465134" misc_feature 766..906 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /note="Argonaute linker 1 domain; Region: ArgoL1; pfam08699" /db_xref="CDD:462567" misc_feature 907..1188 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /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 1321..2676 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /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(1756..1758,1768..1770,1804..1815,1822..1824, 1846..1848,1855..1857,1867..1869,1879..1881) /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /note="5' RNA guide strand anchoring site [active]" /db_xref="CDD:240015" misc_feature order(1969..1971,1975..1977,2227..2229,2644..2646) /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /note="active site" /db_xref="CDD:240015" misc_feature 2692..2754 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /note="propagated from UniProtKB/Swiss-Prot (Q6H6C3.1); Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite" exon 391..746 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 747..880 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 881..993 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 994..1085 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 1086..1173 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 1174..1290 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 1291..1398 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 1399..1470 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 1471..1593 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 1594..1759 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 1760..1881 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 1882..2019 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 2020..2162 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 2163..2225 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 2226..2289 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 2290..2422 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 2423..2496 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 2497..2591 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 2592..2623 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" exon 2624..3003 /gene="LOC4328436" /gene_synonym="AGO17; OJ1116_A06.3; OsAGO17; OsJ_05545" /inference="alignment:Splign:2.1.0" ORIGIN
atcgttgctcgaatatttccccgtccgctgtgcgtcgactccgactgctcgtgtgttcgcccgccgccgccgattcctatccatctcgcgagcgagcaggggcgccgtcgttcgtcctgctgcttccgccgcatccatcctgtgctaaagtttgtaccttgccttggaacattagtcatggagagtcagagaatgacctggctctacgatcgtcaccactccttgaaacataataaagctgaaagacaagccattctatcaacttatagattagcaaaacgtccaaatctctcttcagaaggtatgattggcgaaagttgcattgtgaggacaaattgtttcagtgttcatctggagtctttggatgatcagactatctatgaatatgatgtatgtgtcactcctgaggttggaatcaatcgtgctgttattagagagttggtaaaacagcagaaagattctggtttgggtggccgtcttcctgcctatgatggaaggaagaggctatacacatctggtccattgccatttgattcacatagatttcttgttctgctggatagtattgaagacagtcctgaagagtcaaggcacttgagagtgagagattttgtggtcactttaaaatttgctgcaaaaatttccttatggactttacgcaagttccgtggtgggaagccaaaccgagaaagtcgagcggccctgcgagcacttgacgttgttctaaaggaattacccactgcaaggtatacccaatttgctggttcattttactcacctaacttaggagaatgccgacaattgtgtaaggtcttggaaagctggcgtggttttcaccaaagaatacaagctactcagatgggacttcaactgaatatcgacgtgtcatcatcagtgttcatcaagcctgtacctgtggttgactatgttgcacagcttcttaacgaggacatcttattagacagaccattatgtagcactgagttcttgaagattaaggaggctctagaaggtctgaaggttcagattaatggcattttgttcaacacatatcatgtacaagaccttgtccatcaagcagcaagttttccagttaactttagtattcagtacccatctttgccttgcttgaaagtggctcattttggggagacaatatttctgccattggaggtctgtaaaattgctgagggacaatgtcaccagaaacagctcaatgcaaaacatatggctgctcttcttcaggtagctcgacagccccctaatgagcgtgactacaacattctgcagactgtgcatcagaacaaataccaggaggacccacatgctaaagagtttggcattaaaattgaggaaaaacttgtatcaattaaatctcgcatcctacctgctccttggcttaaattccatgacagtggcgagacgacagaattcttgccacaacttggcatatggaatatgatgcataagaaaatgatcaatggtgggagagtgaaaagctgggcatgtgttaacttttgctggagtgtacgggagtatgctgctaggaatttctgttatgaccttggctttatgtgccgagaatctgggatggtcttttcagttaaacctgtgcttcctctagtgattgctaaacctggatgtgtagaatctgcactcaggacacttcatgacgatgtcatggacatacttagaccacagggcagaaaacttgacctgctgattgtaatattgcctaacaacaatggatctctttatggtgatgtcaaaagaatatgtgagacagatattggactgatctctcaatgttgtcttgcaaaacatgttcttaagatgaacaagtggtatcttgcaagcgttgcccttaaaatcaatgctaagatgggcggaagaaatactgtactggttgatgctttagaaatgagactcccccatgttagggatacaccaactattgtatttggtgctcatgtcacccatccacatccaggaaaagctaatagttcttccattgctgctgttgttgcttctcaagactggcccgaggttaccaagtatgctggtttaatcagtgtgcaagcgtgccaccaggagtcaatacaaggtctttttaaagtccaggatgatccggaaagaggaaccacaactagcggaatgatcaaagagcatctcatgtctttctatcgagccactaaacggaagcccggaaggattatattttacagggatggtgtgagcaaaggacagctccctcaggctttgatgcacgaacttggtgccatcaaaatggcgtgtgcatctatgggacccgattataatccattagttacatacgtggtgctccagaagtgtcgccatacacgtctgtttgctgactactataatgcgaatactcatgattcaactgcaaacatacgggctggtactgtggttgattcaaatatttgccaaccaaatcagtttgatttctacttgtgtagccaccgcagcacgcagggaactaagcggcccaggtattatcatgttctgtgggacgagaacgacttcttggctggttctttccaagagctcacaaactacctctgctacacctccgcaacttgcacccaatccatatcagttgtggcccctgtgcactacgctcgtcttctgtcatcacgagctcgatgttacattaaaccacgctcgattggcgattcaacgagccacacctccttgccttctgaagaagatagcagcgcagcctcagagactggcagtcttcttcctataaaggataatttgaaaggggccatgtttttctgctagaactgctgccagcaagatctgctgtcattttgtacgtggtctgtacagtcccacagttcttggtagatttgactgagcagtcaaaactcattatcgttcagcgagattcaggtgtagcagctgtaggattactgataaacattgttcctgtaccgatactttagaagaaatgaattaattatatcttagaacagc
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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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