2024-09-29 10:32:23, GGRNA.v2 : RefSeq release 225 (Jul, 2024)
LOCUS XM_015771633 4491 bp mRNA linear PLN 07-AUG-2018 DEFINITION PREDICTED: Oryza sativa Japonica Group protein NRDE2 homolog (LOC4330879), mRNA. ACCESSION XM_015771633 VERSION XM_015771633.2 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_029257.1) 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_015771633.1. ##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..4491 /organism="Oryza sativa Japonica Group" /mol_type="mRNA" /cultivar="Nipponbare" /db_xref="taxon:39947" /chromosome="2" gene 1..4491 /gene="LOC4330879" /note="Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 mRNAs, 23 ESTs, 3 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 71 samples with support for all annotated introns" /db_xref="GeneID:4330879" CDS 54..3548 /gene="LOC4330879" /codon_start=1 /product="protein NRDE2 homolog" /protein_id="XP_015627119.1" /db_xref="GeneID:4330879" /translation="
MEPSPEIPPPPPAFAAGGEGDPHAPTTAAARSSSSSSLFPLFPLSAPEESSAPAAGSQWLSNPSFSFDASSLNIPATASSSVPPPLSASSDEEEAPRPAPAKYDLLPYSPSPPASDEERRDRRKDRKRRKRRREKERYNSAEASRKPGVRAWAGSETKLAKDYYFDAKGDQDNLAFGSIYRMDIARYKSQNMPEARGLKRLLFHNLGVSVHMGHESDLDGLNSKARAGGRYYSAKYAVVERNKGFKHLKVLKKDNSAILPEDFIPLGIPSLPENNTTGEQELEESWEDEILRRTREFNKMSREFPHNEKIWLDFARFQDKVASTQPQKAARLQTTERKISILEKAVELNPDNEELLLYLLKAYGERDSTQNLLDKWEQILMKHPDSCKLWKQYLLLCQGEFSRFKVSDLRKSYAYAVQALSAACTKLCRQDTQYDRLEPKYSSLIHLELGLVDIFVNLCRFEWHTGHRELATALFQAQIEFSLFSPPLHLTTSSKQRLFEHFWNNGGARIGEDGALGWSRWLAKDEESRQNIDIQENTQETERGGWSGWFDPSLRTNSETSKVEPSTSDGNDAENPDDEDPSAQEDVESLLKKLGIDGDADYNSEVKDPKTWNRWSFMELSRDNEQWMPLHEKLGSLYSDDAPTGEDNDQLSRVILFEDITEFLFSLSSEEARFSLICQFIDFYGGKISRWTSTNSSSWIDRNLSLEMITDDIQEDLSTVSNLIDKNQTSVHNKMVSLLGTMHEFSQRPGTAKFLKNAILLFLDVFPRNHILEEAVLVTPQIHTAQEKYLATPATASRALAKNLLKKDRQDLLLCGIYGRIEAMNGDFVKARHIFDLALSTSQGASEDLRKKVPILYFWYAEMELAIYASRNNSDSVDRAIHVLSCLGDKAKYASFDGSISRPQVLKARQGFKEQIRSLRSSFASDGMKEESVALICSASLFESMTSGFASGLEVIEETFYMTPSENNHSLEFEELWMHYIKQLQKNLNQLSLSRVWPKISQGIQTYPYNPKSYAAMLTLGCLYSVSNNLRLTLDKFNQRDPSIIGLLFALSFELCKAGSDNRIHNLFERALTDDKLQKSVLLWRCYLAYEAEIACNASAARRVFFRAIHACPWSKRLWLDGFEKLSSILTLKELSDLQEVMRDKELHIRTDIYEILLQDETDT"
misc_feature <192..>392 /gene="LOC4330879" /note="Atrophin-1 family; Region: Atrophin-1; pfam03154" /db_xref="CDD:460830" misc_feature 540..854 /gene="LOC4330879" /note="MTR4-interacting domain (MID) found in nuclear exosome regulator NRDE2 and similar proteins; Region: NRDE2_MID; cd22200" /db_xref="CDD:412062" misc_feature order(540..563,570..575,585..590,594..596,600..629, 633..647,663..671,675..683,717..725,735..740,744..749, 756..776,798..809,828..854) /gene="LOC4330879" /note="MTR4 binding site [polypeptide binding]; other site" /db_xref="CDD:412048" misc_feature 939..2108 /gene="LOC4330879" /note="necessary for RNA interference; Region: NRDE-2; pfam08424" /db_xref="CDD:462472" misc_feature 2982..>3422 /gene="LOC4330879" /note="Uncharacterized conserved protein, contains HAT (Half-A-TPR) repeat [General function prediction only]; Region: COG5191" /db_xref="CDD:227518" ORIGIN
cgacctcttcgtccccctcggctctctctcctccccctcggctcgcaaccgccatggagccatcgccggagattccgccgccgccacccgccttcgccgccggcggagaaggcgatccgcatgctcccaccacagccgccgcccgctcctcctcctcctcctctctatttcctctcttccccctctcggcgcccgaggaatcctccgcccccgcggcggggtcccagtggctctcaaaccctagcttctccttcgacgcctcctccctcaacatccccgccactgcctcctcatccgtaccgccgccgctaagcgcctcgtcggacgaagaggaggcgccacggcccgcacctgctaagtatgacctgctgccctactcaccgtcgcctccggcctccgacgaggagaggagggacagacggaaggataggaagaggaggaagcggaggcgggagaaggagcggtacaatagcgcggaagcctcgcgaaagccgggggttcgcgcttgggctgggtcggagacgaagttggctaaggattactacttcgacgccaagggcgaccaggataacttggcgtttggatcgatatacagaatggatattgcacgctacaagtctcaaaacatgccagaggcacgtggtctaaaacggcttttgtttcataacttgggtgtctcggtacatatgggtcatgagtcagatttagatggactgaatagcaaagcaagagctggaggtcgctactactcggcgaaatatgcagttgtagaaagaaataagggtttcaaacacctaaaagtattgaaaaaggataactctgcaattctcccagaagattttatccccctagggataccatctcttcctgaaaataacactactggggaacaggaacttgaagaatcttgggaagatgaaatacttcggaggacacgagaattcaacaagatgtctcgggagttccctcacaatgagaaaatttggttggactttgcccgattccaggataaagttgccagtactcaacctcagaaagcagcccgtttgcaaacaactgaaagaaaaattagtatattggaaaaagctgtagagcttaatccagataatgaagaattattgctttatcttctgaaggcatatggtgagagggatagcacccagaatctcctggataaatgggagcagatactcatgaaacacccggatagttgtaagttgtggaaacagtatctacttctgtgtcaaggggaattctccagattcaaagtatctgacctacggaagtcttacgcttatgcagtacaggctttatctgcagcttgtactaagctatgtaggcaggatacacaatatgatcgtctcgaacctaagtattcttccttaattcatcttgaactcggtctagtggatatatttgtgaatttgtgtcggttcgaatggcatactggacatcgggaattagcaactgcactatttcaggctcaaatagaatttagtttattctcccctccccttcatctgaccacaagcagtaagcaaagactctttgagcacttctggaacaatggtggtgctagaatcggagaagatggggctcttggatggtccagatggttggcaaaagatgaggagagtagacaaaatatagatatacaagaaaatacccaagaaactgaaaggggtggttggagtggttggtttgatccttctctaaggactaatagtgaaacaagcaaagtggaaccatcgacatctgatggaaatgatgcagaaaatccagatgatgaggacccatctgcacaagaagatgttgaatctttgctgaaaaagcttgggattgatggagatgctgattacaatagtgaagttaaagatccaaaaacgtggaatagatggtcatttatggagttatcaagggataatgaacaatggatgcctcttcatgaaaaacttggatcactttattctgatgatgctccaactggagaagacaatgatcagctttccagagtaattttgtttgaggatataactgagttcctgttctctctatcttctgaagaggctcgcttttctttgatatgccaattcattgatttctatggtggaaaaatttctagatggacatccaccaacagttcaagttggattgataggaatttgagcctagagatgattacagatgacattcaggaagatcttagtacggtgtctaaccttatagacaagaaccaaacttcagttcataataaaatggtgtcattgttaggaactatgcatgaattttctcaaaggcctggcactgcgaaatttctgaaaaatgcaatattgcttttccttgatgtattccctcgtaatcatatcctggaggaagctgttcttgttaccccccaaattcatacagctcaagaaaaatatctggctactccagccaccgcatcccgggctttggccaaaaatctattgaagaaagacagacaggatcttttgctttgtggaatatatggacgaattgaggctatgaatggggactttgtcaaagcaaggcatatattcgacttggcactatcaacttctcaaggagcttcagaggatctcaggaagaaggttcctattctttatttttggtatgctgagatggagctagcaatatatgcttcaagaaacaattctgactctgtggatcgtgcaatccacgttctgtcctgcttaggggacaaggcgaagtatgcttcttttgatgggtctatatcacgacctcaggtgttaaaggctcgtcaaggatttaaagagcagattagaagcttgcgatcttcatttgcaagtgatggtatgaaagaagagtctgttgctctaatctgctcagcatctttgtttgagagtatgacatctggttttgcttctggtcttgaagttatagaagagaccttttatatgacaccttcagagaacaaccatagcttagaattcgaagaattgtggatgcactacatcaagcagcttcagaaaaatcttaatcagttgagtctctcaagggtttggccaaaaatatcgcaaggaatacaaacatatccgtacaacccaaaatcatatgcagccatgttaactctaggttgcctttacagtgtttccaataatctacgtctcacactcgacaaatttaatcaaagggatccttccataattggcttgctctttgctttgtcctttgaattgtgcaaagctggatcagacaatagaatacacaatctgtttgagagagctctgactgatgataagttacagaaatccgttctgttgtggcgctgttatctagcttatgaggcagagatagcttgcaatgcttctgcagctcggcgtgtgttcttcagagctatacatgcctgtccatggtctaaacgattatggcttgatggatttgaaaaactgagttcaattttgacactgaaagagttgtcagatctccaagaagtaatgcgtgacaaggaattgcacattcgaactgacatttatgagatactcctgcaagatgaaacagatacgtgatgcagctatccctgtttttgtccataattcgagatctccatattatctcaaggttccatcttgcaactgaagatcggttgcatgtgatcttttaactcataattgttggactctcaagatcggttgctcaggaacctttatgtcgcatggaatgtgatctggacacgatgtacatccaaagcatctttagattggcaatctcgtgacatattaatgtgatttattttctgttcctggagacatatgttcggcttgtgtctggtcactccaatccttgtatttggttggctcatgcttcttggaagggcacaactgcaggaagaggtcaatatgaagtaatgatggaggaaagcatagagcggcagcataaagttgaaattgtcttgccaaaatggaacatcaaaagctggcagagaatcgagttgataaataaaaaattactgcgtcttcaggttgggggtatttatgcagtaccctagcgtcaatcaaaagcctggagtatgtcttcatttatcatctttctgcgattaaacgatgcttgtcctttttaaaacggaaagaaggaaagcttagttctgaacataatatactaatattgtggtatatatgtgtacaatgcttgaagtgacacatttttttttgaaaaaaaaaagaaactaccgtaaaaatatgactcggtaattacaaaagagggttgctagatgaggggtgcatactacctcttgttagctgagtctgctgcagcaaatgatgttagtaggtatagttgtataccatgttctcgtaggatactgtttactctttatttgttatgctccgctgctgtgatgcctgcgtcctatactcctagccaaacgcccacgcgatacggcgatggtggagagaggccgataggctatagcgctttcgagtattcttgtattcgacggtccatttgcagtta
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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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