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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
//

by @meso_cacase at DBCLS
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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. [Full Text]