2024-03-30 00:13:57, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_012837615 6904 bp mRNA linear VRT 27-JUL-2021 DEFINITION PREDICTED: Clupea harengus argonaute RISC component 4 (ago4), transcript variant X1, mRNA. ACCESSION XM_012837615 VERSION XM_012837615.2 DBLINK BioProject: PRJNA587748 KEYWORDS RefSeq. SOURCE Clupea harengus (Atlantic herring) ORGANISM Clupea harengus Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Clupei; Clupeiformes; Clupeoidei; Clupeidae; Clupea. COMMENT MODEL REFSEQ: This record is predicted by automated computational analysis. This record is derived from a genomic sequence (NC_045170.1) annotated using gene prediction method: Gnomon. Also see: Documentation of NCBI's Annotation Process On Nov 18, 2019 this sequence version replaced XM_012837615.1. ##Genome-Annotation-Data-START## Annotation Provider :: NCBI Annotation Status :: Full annotation Annotation Name :: Clupea harengus Annotation Release 102 Annotation Version :: 102 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 9.0 Annotation Method :: Best-placed RefSeq; Gnomon Features Annotated :: Gene; mRNA; CDS; ncRNA ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..6904 /organism="Clupea harengus" /mol_type="mRNA" /db_xref="taxon:7950" /chromosome="19" gene 1..6904 /gene="ago4" /note="Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 5 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 10 samples with support for all annotated introns" /db_xref="GeneID:105909045" CDS 178..2853 /gene="ago4" /codon_start=1 /product="protein argonaute-4 isoform X1" /protein_id="XP_012693069.1" /db_xref="GeneID:105909045" /translation="
MEALGPESPPGPPAPTSLFQPPRRPGLGTVGKPIRLLANHFQVQIPKIDVYHYDIDIKPEKRPRRVNREVVDTMVRHFKMQIFGDRQPGYDGKRNMYTAHPLPIGRDRVDLEVTLPGEGKDQTFKVSLQWVSVVSLQMLIDALSGHHPEVPEDCVQALDVITRHLPSMRYTPVGRSFFSPPEGYYHPLGGGREVWFGFHQSVRPAMWNMMLNIDVSATAFYRAQPVIEFMCEVLDIQNINEQTKPLTDSQRVKFTKEIRVSVSGLSKGLKVEVTHCGQMKRKYRVCNVTRRPASHQTFPLQLENGQAMECTVAQYFKQKYSLQLKYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTMIKATARSAPDRQEEISRLVKSNSMVGGPDPYLKEFGIVVHNDMTEVTGRVLPAPMLQYGGRVSTDTGRDCGRGLSPQNKTVATPNQGVWDMRGKQFYAGIEIKVWAVACFAPQKQCREDLLKSFTDQLRKISKDAGMPIQGQPCFCKYAQGADSVEPMFKHLKMSYVGLQLIVVILPGKTPVYAEVKRVGDTLLGMATQCVQVKNVVKTSPQTLSNLCLKINAKLGGINNVLVPHQRPSVFQQPVIFLGADVTHPPAGDGKKPSIAAVVGSMDGHPSRYCATVRVQTSRQDLAQEQLYSQEVIQDLTNMVRELLIQFYKATRFKPTRIIYYRGGVSEGQMKQVAWPELIAIRKACISLEEDYRPGITYIVVQKRHHTRLFCSDKAERVGKSGNVPAGTTVDSTITHPSEFDFYLCSHAGIQGTSRPSHYHVLWDDNCFTADELQLLTYQLCHTYVRCTRSVSIPAPAYYARLVAFRARYHLVDKDHDSAEGSHVSGQSNGRDPLALAKAVQIHYDTQHTMYFA"
misc_feature 271..660 /gene="ago4" /note="N-terminal domain of argonaute; Region: ArgoN; pfam16486" /db_xref="CDD:435368" misc_feature 691..843 /gene="ago4" /note="Argonaute linker 1 domain; Region: ArgoL1; pfam08699" /db_xref="CDD:430160" misc_feature 844..1230 /gene="ago4" /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(1024..1026,1069..1071,1111..1113,1123..1125, 1177..1179,1198..1200,1204..1206) /gene="ago4" /note="nucleic acid-binding interface [nucleotide binding]; other site" /db_xref="CDD:239212" misc_feature 1369..2724 /gene="ago4" /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(1828..1830,1840..1842,1876..1887,1894..1896, 1918..1920,1927..1929,1939..1941,1951..1953) /gene="ago4" /note="5' RNA guide strand anchoring site [active]" /db_xref="CDD:240015" misc_feature order(2032..2034,2038..2040,2278..2280,2692..2694) /gene="ago4" /note="active site" /db_xref="CDD:240015" polyA_site 6904 /gene="ago4" /experiment="COORDINATES: polyA evidence [ECO:0006239]" ORIGIN
ccccaggatctgctttaaatcactcagaagacaacgcaccctcgacgggctgtggatatctacgcacctcttccatttcttaaattagccccactaagcttcgagataccgcccccaatatcagtgtcggtacggagccgccaggccgggacagagacggagagagagccctcggccatggaagcgctcggacccgaatctcccccaggcccgcccgcccctacctccctctttcaaccgccgcggcggcccggcctgggcaccgttgggaagccgattcgcctgctggccaatcacttccaggtgcagatccccaagatcgacgtctaccactatgacatcgacatcaagcctgagaaaagaccacggagggtcaacagagaggtggttgacaccatggtcaggcacttcaagatgcagatctttggggaccggcagcctggatacgatggcaagaggaacatgtatacagcccatccgctgcccattggaagggaccgggtggatctcgaggtgactctgccaggtgaagggaaggaccagactttcaaagtgtctctgcagtgggtgtccgtggtgagcctgcagatgctcattgatgccctttccggtcatcatccggaggtcccagaggattgtgtgcaggcgctggatgtcatcacccgtcatctgccctccatgagatacaccccggtcggccgctctttcttctctccgcccgagggctactaccaccccctcggtggaggcagggaggtgtggttcggcttccatcagtccgtccgcccagctatgtggaacatgatgctcaacattgatgtttcagccactgccttctaccgagcccagcctgtcatcgagttcatgtgtgaagtcttggacatccagaacatcaatgagcagaccaaacccctcacagattcgcaacgtgtcaagttcaccaaggagattagagtttctgtttctgggctttctaaaggactgaaagtggaggtcacccactgcggtcagatgaagaggaagtaccgtgtgtgcaatgttacccgccgcccagccagccatcagacgttccccctccagctagaaaatggccaagccatggagtgcactgtggctcagtatttcaaacaaaagtacagcctgcagctcaaatacccccaccttccctgcctccaggtggggcaggaacagaagcacacctatctgcccctggaggtttgtaatatagtagcaggccaacggtgcataaagaagctgacggataaccagacctccactatgatcaaagccacagcccgctcagcacccgaccgacaggaggagatcagcaggctggtcaaaagcaacagtatggtgggcggccccgacccctacctgaaagagtttggcatagtcgtgcacaacgacatgacggaggtcaccgggcgagtcctcccagcgcccatgctgcagtatgggggccgggtgagtactgacactgggagggactgtggcaggggactctctccccagaacaagacggtggccacgcccaatcagggcgtgtgggatatgagggggaagcagttctacgccggcatcgagatcaaggtgtgggctgtagcctgcttcgcccctcagaagcagtgccgagaggacctactcaagagcttcacagaccaactgaggaagatctcgaaagacgctggcatgcccatccagggacagccctgcttctgcaagtacgcccagggagccgacagcgtggagcccatgttcaaacacctcaagatgtcctacgtgggcctgcagctcatcgttgtgatcctgcctggaaagactcccgtctatgcggaggtgaagcgcgttggggatactctcctgggtatggccacccagtgtgtccaggtgaagaacgtggtgaagacgtccccccagaccctgtccaacctctgcctcaagatcaacgccaagctaggcggcatcaacaacgtcctggtgccccatcagaggccctccgtgttccagcagcctgtcatcttcctgggggcggacgtgactcaccctccggcgggcgatggcaagaaaccgtccatcgcagcggtggtgggcagcatggacggccaccccagccgctactgcgccacggtgcgcgtgcagacctcgcggcaggacctggcccaggagcagctctacagccaggaggtcatccaggacctcaccaacatggtgcgcgagctgctcatccagttctacaaggccacgcgcttcaagcccacacgcattatctactaccgaggcggggtgtccgagggacagatgaagcaggtggcttggccagagctgatcgccatcaggaaggcctgtattagcctggaggaggactaccggccgggcattacctacatcgtggtgcagaaacgccaccacacccgcctcttctgctccgacaaggctgagcgggtggggaagagtggcaacgtcccagcaggcaccacagtcgacagcaccattacccatccctcagagtttgacttctacctttgcagccatgcgggcattcagggcaccagccggccctcccactaccacgtcctgtgggatgacaactgcttcacggcggacgagctgcagctgctcacctaccagctgtgccacacctacgtgcgctgcacccgctccgtctccatccccgcgccagcctactacgcccgcctggtggccttccgggcacgctaccacctggtggacaaagaccacgacagtgcggagggcagccatgtctcgggccagagtaacggtcgtgaccctctggccctggccaaggcggtccagattcattatgacacccagcacaccatgtacttcgcctgacccaagccagcaggaggcgccatttctctctttttaaatactctgtttttctccactctttttctgtcatttatcgttctctctctctctatctctgcgcgcgcgtatttttctgctacggagcggttccataagccagcgaaccaggccgtcagtccaagccgagcagacccagacccaacggaaccgccattctaccagcaatccagcactgagaggctttcgggtttccaatgcacacagaaaaaaatagaaaaaaaaaaaaaaaaaacacactcactcactctcgcactcacacacacaaaaacaacataagaaaacccaaattgagccatttttttgttcatttcttcattttgaatgttgaaatgtattattgttgtaatttgtttgttgttttatgagtttcttttctttttgtaagatacactgagcgcaagcaacacacagctgccatcttggcaagtgaagctttgcctctttcagctaagcaggactctcttcacttttacctcaagccctttttgggcaacaaaaatgtcacaaatgtctatggggttgggcgggcggggtgggggtgcgtggggcgttttgaactttcagaggtgatgacaatgaaaacattttgttcctttttacaactgtgttttaactctttctcctctcaaaatcttttacaagcgaggtgacctgggtagccattgcccattgcgacttctatatctcctgttctgcaaagactagctgcaagtgctcgcgtgagtgtgttgatgtgtgcgtatgtatgtatatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtttcatggcaggccactgaattgtaaagggatatcaaggagataactgctgtaaatgcctctgtttttttatatttacacacatatataaatatatataaaaatatttacatctacaatatataagcgtctttcagtagattttactgacttgcataagctggcggtggtgtgtagcagcatcaagtatcgtgttccttttttctgtgtggcagaccaaggagagcatcaggggagtcatttttgttgccacggtaacctgtggtgtcttgagtgacctccttatgccctcgtttagatggtgatggggttgaggaagtgggtagactgttgtgtgtctcgaaggggtaaatgcaacagctaggtctggtggtctagagaagaaaggcctctttatttgttttggtcttttcagacctagttcgtagtgtgtacttaaggttgacttggcaaggcaaacagaaggcactctccctttcccctcaccttttatgcatttttaaattcagatcagatttgtaagagtttaatataaataagagactttttttttttcgtgacttatcttaactgttcttagagttagatgatgcattgttgttgctcttgttgttaattgttgttcttactatgatcgtcatgatgatgatgatgatgatgaagatggtatggagactgtcaacagccagatgtttagttcagctttgagggagatgctcttggatctttcagcggagtttgtgatatttgtaaggtgtgcaggtctgtgtgtgtggtgtgcgtgcatgggtagtgtgctgggtccatttgcctaatttgctgatttaagggggggatgtgtgctggggaaagtgggggaggggtttctccttttggctcctgatggatgttccttttttctgtaatttttctggagacggaattggttggacgttagtttcctttatctttgtcctcaatattgacttctcgtcctaaagggcccgcggtcgtccaattgcactgtttcagaaacctgcccactggtttgacagaggcgtttctgtttgtttcttattttcgtttccttttgtttgaggtagcatattatgtttatggttgaaacattattttggttgagagcaagttttttaaagtgacaatcatcagagcctaaaggaggccaaattattagaagctgacgagcaggaaaggaataaaatggcagcaggcggtggttttgaatttttacacgtaaaaaaatgtttctatcctgttgtgtgtatttgaccatgtgtatctatatctattgaaaagtctgtactaaaaggtttttttttttttttttttttgttacatttttggatcatttatgaaaaagatacaaaaaaaaaaaaaaaaaaaagcaaaacacaaagtaatcggatgccagccattggagctcacagtcataagcactgcccttcagattacacgattagtaacccgaaggaggcccttgaggtccctcccaggttttcagcggttttgggtggagaggtcaggtattggggtggggtagggtagggtggggtgggggttggtcagttttgggtgggagcggcactccacgcctcggcagggagggggcactcggcaaaaaaaccttttataataaaccaccggttaagcagcaggtttgctatgaatgagtttgagcgcagacccccccggggggcgtggagagcgctcccttctgaccaggaccaatggggagtcagaggagactagatgagggggtaggaaggttaacatggggacctcaatgtccagcgggcctcctcgccacactgattgataccccctatactggcatcaccattccctcaaagtgtgtcccagtttcttatcaggtcatgtcagtttccactttcaaactcctattctcactgcgaagcaatatgaacccaacccaatgttttttgcattgctttttagttcctctacaagttttaaaaagaaagaaaaaaaaaaaaaaaaaaaagctataactgctcgtttttgtcttgctatggctgttggtctgatctatatgcggtgtttgtattttctgtgctagctttttttttttctcactctttcctttccttgtttttatgcttgtatcaatcagtgggaatgtgcttttggtggattagctctttaggcttcgttaacagttttgaaaactttttagactttgctcgcttgcatgccagagtatcgtccttatgagaaaagaaagaagaaaactcttagagactatttattaagacaacagaaagagcaaaagatcttataaaggttttttttttttaaacaaaaattatgtctaagtattttaggtgagactttttggggtagcaatatttgcagagtctcttttaaggacagatggacttcagagatacaaacaaataacgattcctacagaaatgacattgatttgcggcacaagctgaggtagggttggggtcattggggtttgagggggggggggggggtcagaggtgaggacttgggagtctttgcacgcgctcacaaagtcaaacgaggtactttcttcaatcaggggctggtgaagactcccgtccccctccctctctcctcccctcccttgccgtccttcgctggccaccctccatgccctgccccataccttggcactgaccagcccacaaccctcccaaatgcacttccttgtagtgggtggcgaccccaccccttcaccccttgtagggctcccggcaacaggattacctctttttcaaacgttttattaattctttctgtaccttgcccccacacaccctcctcagacatcaacagagcatgattttaattttttaattcctctttgatatatacaaggatttgttatttgatgatgtgtgtttgtaatttaatttttttttttttcttctttaaatttgttttctttctctgttcttatactggtgtgtagcgctgtgctgatttaactctagtgttccgagctgtgtgaccagtagcaataggggttgggggggcgcccttgaggtcctgctgggaaggtctgggggggggggggggggggctatagccagcctcttctgacagggtgcttggtcagttgctgtattgctaaagtgacatgttaaaaatcctcctttttttttttttagcctgcagggaatatttgtgttttattgtgcaaactaagtaataaattggtattttaatgcctcgct
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@meso_cacase at
DBCLS
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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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