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2024-03-28 21:51:18, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       XM_039110021            6896 bp    mRNA    linear   ROD 11-JUN-2023
DEFINITION  PREDICTED: Rattus norvegicus argonaute RISC component 1 (Ago1),
            transcript variant X2, mRNA.
ACCESSION   XM_039110021
VERSION     XM_039110021.1
DBLINK      BioProject: PRJNA677964
KEYWORDS    RefSeq.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_051340.1) annotated using gene prediction method: Gnomon,
            supported by mRNA and EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI RefSeq
            Annotation Status           :: Updated annotation
            Annotation Name             :: GCF_015227675.2-RS_2023_06
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 10.1
            Annotation Method           :: Best-placed RefSeq; Gnomon;
                                           cmsearch; tRNAscan-SE
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            Annotation Date             :: 06/06/2023
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..6896
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN/NHsdMcwi"
                     /db_xref="taxon:10116"
                     /chromosome="5"
                     /sex="male"
                     /tissue_type="kidney"
                     /country="USA: Wisconsin, Milwaukee, Medical College of
                     Wisconsin"
                     /collection_date="2019-03-08"
                     /collected_by="Rebecca Schilling"
     gene            1..6896
                     /gene="Ago1"
                     /gene_synonym="Eif2c1"
                     /note="argonaute RISC component 1; Derived by automated
                     computational analysis using gene prediction method:
                     Gnomon. Supporting evidence includes similarity to: 1
                     mRNA, 42 ESTs, 2 long SRA reads, 2 Proteins, and 100%
                     coverage of the annotated genomic feature by RNAseq
                     alignments, including 68 samples with support for all
                     annotated introns"
                     /db_xref="GeneID:313594"
                     /db_xref="RGD:1304619"
     CDS             166..2295
                     /gene="Ago1"
                     /gene_synonym="Eif2c1"
                     /codon_start=1
                     /product="protein argonaute-1 isoform X2"
                     /protein_id="XP_038965949.1"
                     /db_xref="GeneID:313594"
                     /db_xref="RGD:1304619"
                     /translation="
MPHRVGACARGTSSLPVPARYTPVGRSFFSPPEGYYHPLGGGREVWFGFHQSVRPAMWKMMLNIDVSATAFYKAQPVIEFMCEVLDIRNIDEQPKPLTDSQRVRFTKEIKGLKVEVTHCGQMKRKYRVCNVTRRPASHQTFPLQLESGQTVECTVAQYFKQKYNLQLKYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTMIKATARSAPDRQEEISRLMKNASYNLDPYIQEFGIKVKDDMTEVTGRVLPAPILQYGGRVSRNRAIATPNQGVWDMRGKQFYNGIEIKVWAIACFAPQKQCREEVLKNFTDQLRKISKDAGMPIQGQPCFCKYAQGADSVEPMFRHLKNTYSGLQLIIVILPGKTPVYAEVKRVGDTLLGMATQCVQVKNVVKTSPQTLSNLCLKINVKLGGINNILVPHQRSAVFQQPVIFLGADVTHPPAGDGKKPSITAVVGSMDAHPSRYCATVRVQRPRQEIIEDLSYMVRELLIQFYKSTRFKPTRIIFYRDGVPEGQLPQILHYELLAIRDACIKLERDYQPGITYIVVQKRHHTRLFCADKNERIGKSGNIPAGTTVDTNITHPFEFDFYLCSHAGIQGTSRPSHYYVLWDDNRFTADELQILTYQLCHTYVRCTRSVSIPAPAYYARLVAFRARYHLVDKEHDSGEGSHISGQSNGRDPQALAKAVQVHQDTLRTMYFA"
     misc_feature    232..384
                     /gene="Ago1"
                     /gene_synonym="Eif2c1"
                     /note="Argonaute linker 1 domain; Region: ArgoL1;
                     pfam08699"
                     /db_xref="CDD:430160"
     misc_feature    385..747
                     /gene="Ago1"
                     /gene_synonym="Eif2c1"
                     /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(541..543,586..588,628..630,640..642,694..696,
                     715..717,721..723)
                     /gene="Ago1"
                     /gene_synonym="Eif2c1"
                     /note="nucleic acid-binding interface [nucleotide
                     binding]; other site"
                     /db_xref="CDD:239212"
     misc_feature    880..2166
                     /gene="Ago1"
                     /gene_synonym="Eif2c1"
                     /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(1300..1302,1312..1314,1348..1359,1366..1368,
                     1390..1392,1399..1401,1411..1413,1423..1425)
                     /gene="Ago1"
                     /gene_synonym="Eif2c1"
                     /note="5' RNA guide strand anchoring site [active]"
                     /db_xref="CDD:240015"
     misc_feature    order(1504..1506,1510..1512,1720..1722,2134..2136)
                     /gene="Ago1"
                     /gene_synonym="Eif2c1"
                     /note="active site"
                     /db_xref="CDD:240015"
ORIGIN      
gaatttttaaggtctccatcaagtggctagccatcgtgagctggcgcatgctgcatgaagccttggtcagtggccagatccctgtgcccttggagtccgtgcaagccctggatgtggccatgaggcatctggcatctatgaggccagggctcctccgtgcccaggatgcctcacagggtgggggcctgtgcccgagggaccagttctctgcctgtccctgccaggtacacccctgtgggccgctccttcttctcaccgcctgagggctactaccacccgctggggggtgggcgcgaggtctggttcggctttcaccagtctgtgcgccctgccatgtggaagatgatgctcaacattgatgtctcagccactgccttctacaaagcacagccagtgattgagttcatgtgtgaggtcctggacatcaggaacatagatgaacagcccaagcccctcacggattcccagcgcgttcggtttaccaaggagataaagggcctgaaggtggaagtgacccactgtggacagatgaagaggaaataccgcgtgtgtaatgttacccgtcgccctgctagccatcagacgtttcccttgcagctggagagcggacagaccgtggagtgcaccgtggcacaatatttcaagcagaaatacaaccttcagctcaagtatcctcacctgccctgcctgcaagttgggcaagagcagaagcatacctatttgcccctcgaggtctgtaacattgtggctgggcagcggtgcattaagaagctgactgacaaccagacttcaaccatgataaaggctacagctaggtcggccccagacagacaggaggagatcagtcgcctgatgaagaacgccagctacaacttggatccctacatccaggaatttggaatcaaagtgaaggatgacatgacggaggtgacggggcgagtgctgccggcgcccatcttgcagtacggcggccgggtgagcaggaaccgggccattgctacacccaaccaaggtgtctgggacatgcgtgggaaacagttctacaatgggattgagatcaaagtctgggccatcgcctgcttcgcaccccaaaaacaatgtcgagaagaggtgctcaagaacttcacggaccagcttcggaagatctccaaggatgcagggatgcccatccagggtcagccatgtttctgcaaatacgcacagggggcggacagcgtggagcccatgttccggcatctcaagaatacctactcaggactgcagctcattattgtcatcctgcccgggaagacgccggtgtatgctgaagtgaagcgtgttggagatacgctcttgggaatggcgacacagtgtgtgcaggtgaagaatgtggtcaagacctcacctcagactctgtccaacctctgcctcaagatcaatgtcaaactcggtggcatcaacaacatccttgtcccacaccagcgctctgctgttttccaacagccagtgatttttctgggagcagacgttacacaccccccggctggggacgggaagaaaccatctatcacagcagtggtaggcagtatggatgcacaccccagccgatactgtgccactgtgcgtgtacagcgtccacggcaggagatcattgaggacttgtcctatatggtgcgggagctgctcatccagttctacaagtccacccgattcaagcccacccgaatcatcttctaccgagatggggtccctgaaggccagctgcctcagatccttcactatgagctgcttgccattcgagatgcctgcatcaaactggaaagagactaccagcctgggatcacgtacatcgtggtacagaagcgacatcacacccgcctcttttgtgctgacaagaatgagcggattgggaagagtggtaacatcccagctgggaccactgtggacaccaacatcactcacccgtttgagtttgacttctacctgtgcagccatgcaggcatccagggcaccagccgaccatcccattattatgtcctttgggatgacaaccgtttcacagcagatgagctccagatcttgacataccagctgtgccacacttatgtacgatgcacacgttctgtctctatcccagcacctgcctactatgcccgcctggtggctttccgggcccgataccacctggtggacaaggagcatgacagtggagaggggagccacatatctgggcagagcaatgggcgagacccccaggccctggccaaagccgtgcaggttcaccaggatactctacgcaccatgtacttcgcttgaaggcagaacgctgttacctcactggacagaagaaagctttccaagccctgggagctgtgccacccaaatccagaggaagcaaggcagagggagctggggtcagatggaacataggaggccttgtttctatctacagagggggtatgagggtgggaagaggaccaccaagacagattaccagccagaaatctctgatagcaacctcatgtcctccacccctctccccatcttgtcacatccgacccccctggaccaaaaggggcattactagtgcccaccatacacacagttgtctcatgtgactcacagtgctaaagactcatgctcgacagcttgctagggtcaggtctgcagccctgtggtcaaatgctggtatgtttgggtttgatattctagatgagaaagtgggtgggaagagggaaggaatttttaggagccttaatcagaaaaggtctagatttgttgaagaaaaatgaaaacagactcagatcaatattttaggatactagatgttttcatgggttcagaatccagtttgtaggaagatttttaatgctaacggtttgggttgctccgccccagctgccacccctcccattattcctctccatgttctctacccccactcgcctctccctgacagacatccagccctagtaacacttaaggcactatggcacttagctctgaggtgacacgaccctgtcttccttccgcctgctggtgggtaaccagtgccttcccgtaagggtaatgctgcagaactgcaaccttttgtacctttctctgtgggatggggtgtgggtgggagaggaggtagggagggagggacgagctatcccaatgccagcaagcctacagccagaatgccaggtaattttcatttgaaggaatttgcttccataatcattgagcttcttaaaaaaaaaaaaaaaaaatcacaacctcagatggttaaaatccattgacatttgcactttcagacatgactagtctccgagctgctgagatgactggcccttggcctttcccctcttccctggccccacctccacccccaccccacccccaccatgccaggtctagagctactgtcctagtatttctcattcttggcttctttcccccctgatggtaaagactcttttgtttcaatatttcttaactggggtgtcttacaacagaagatcttaaggactaacataagaaaacagaaaactaaatgttatttttataccataacttgagtctattgccaaaatctgaaaatccctcccaaacctgatgactctgcatcccagaaacatggagccatcagaaggaactgtggacctgacttgtattctaacctggccaaggtggggggtggttgtctccccaaggtggggcttagcctctatcttccctctgtgcagataataccttgttgtcgagacggccttcctccacggcgctgtctgtcccgcactctgccttgtaagtgcatcttccctttttctggactggactgtcctttgactccttgactaaccgagactctagcatgtcctctggacaggctcgagaattttgctgctcccttttgcttctgtttacacaaatgaaattttcctgtttcccactagggcatgtgagtgggtagcatgggcttttctttttctacccctctcttgagatactggggttgagctgtcttgcaggactggaaaagaagtgggttctagctttgtccttgctgaccttgaagcgaggccccctctttcctcgactgttctttttttcttcctgcattattgcttgggatggggaatttgaacctctgtgtacaggttccccttctgaggagcctgagcttaggattgccctgctctggtgatgaagccatgatatttagatctagcccaggcatagaggccgctggagaaaggaaagtctgaaccctggcctatggagtcacaacctttccccaggagcccttgtacagacccaggtttgctatgcaaatagtccaggttcagttgtggctggctacattgttcagtaacttcccaacaggtagcacaaacattccttatgggaaaagcccagggctgttcagtagttcctcctgtacttcttttctgctggctacagtatggagtgccccgtgggcacaggcccagctgaagaacacaatggagggctctgggaagaggcagctcactggagagcctacattccttacacaagtgcctaaacagagtgatgccaacactccatctgccctgcccatcgccttcatagacagtctacttcctgttccgtcaccctttggggagggagctcttcgcagacagtgtgctgtcagcttgggtacatttgagggcttggattaagggcactactccagaagggtcccgtcattcaccagcatttgcagatgcccgtggggaacaggtggctgtcacaactcccagcaacaagtttttgttctttctttctttgcctcactctctccagttgggttttcagctagaatgaaaatgaagcttcagccctttggtatttatgtgccatccaagaaataaaagccagagagtgctgggcgtgatggccatgtctgtagttctgttatctcagcactaaggctgaagcaggagatttgcaagtttgggtccacctgggctgctgagtgtggccagtgtgcaccatgtagcaagaccatgtgtccatagaaaggaatgagaaaaatgacttggggaatacatcttgctgtgatgtttaaacaattctttgagatttaactactgaccctgtaggttcttctcatttaaggtggtatgaacacattaaaaacagtgtcgccaagcctcagcttgtttggatttggtttaagtggtgcattgtaccaagctctgggaggattccaacctcatcttagagctttctcctcacccccacccccactcccactgccccccatccccgtttggctttccctttcctcttttcgcctcccctggcttccttttccttctccctcttccctcagcttgcttgctggctggcctgcctgcctgtctgcctgtgtgataatgaattctctgcatggctgcaatgatcccgctgttctttggcaaggtcaggcttagctcattgactacagaagaccaaaaacctgttcctcatgcccagtggtgttagccctgggctgcactgtcctcaagcttacactaggtcggagcagcgggcctgcctaactgacaaaatcagggaggtttctggcagtcccagcacctctccattttgtggagagggtttggaaaagaggtggtgatggggagtgcagctctgagttcagcccagtgtgacccagtggttgaggtggtagtgccagcctgcagggccagcctggagctgctgttgctgggaacttatgcttggactctgactaaagtcgaacataagtaggaaactgctctaaaaatctagttctcagctgcagcatggctcctctgtggctgggcagcagtgtttttgaacagttttctttttaaccagaattctgtgaatgatgccagggacatagttttcttagctggcccatgggaagtctacaaggctgctcagacctggcatcgggcatcacaaaggaggatggaatttcttccctttcagggtggaagagtcacctctgacctagccaaaaggcagttttgggaactcatgttgggaggaaggatttcgttttatttgtttttttttttttttttttgttttttttttttgtttttttgttttgttttgttttactgggctttagataacccaggatggtagttaattatgccttccttgggcagggattatggcagggatatgcaaggcactctaatacttagccttctaagcagactgggaaagggggattctctggttttctctttctccccacttactaggacttgccttctccctgagccacgagagaggctgggttggtgctctccccttactctgctcctactgacttagaacctctggctgctgtacgatagcccaggaaagggaatggaaagaatgggctcaaaacagtaatgtgaggaaggtgattcccttccttaaaaagggaaatcagaaactctccaagaattctgtaagtaaagacaatgtgtctgaatgcactgagtcctctggtgtcatagcaataaggaaaaatgaattgacttcctgtgcacacagtccaacctgatgggtgtatgttgttgcacttagcagccatgtggtgggcacgtgtgacaactctgggtttcactttattttctaaacttcttattcctctcaagtccagcatggatggggaaatgtccctggagccccgcagctgtgtacttgtttgcatttgtttcccattgagacttgtgtttgtgtcctgctttgagctgtaccctgtcccgtccattgtgaaattatcccagcagctgtaatgtacagttcccttctcaagcaagcaacagcagcacaatcctgtgttttataaagacaacagtggcttttatttctaaagtgtggtctctggcttttttttttcctgtcacaaaataaacggtgtattaattaca
//

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]