GGRNA ver.2 Home | Help | Advanced search    Previous release (v1)

2020-04-07 23:25:24, GGRNA.v2 : RefSeq release 99 (Mar, 2020)

LOCUS       XM_012964517            5660 bp    mRNA    linear   VRT 18-DEC-2019
DEFINITION  PREDICTED: Xenopus tropicalis argonaute 2, RISC catalytic component
            (ago2), transcript variant X1, mRNA.
ACCESSION   XM_012964517
VERSION     XM_012964517.3
DBLINK      BioProject: PRJNA205740
KEYWORDS    RefSeq.
SOURCE      Xenopus tropicalis (tropical clawed frog)
  ORGANISM  Xenopus tropicalis
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae;
            Xenopus; Silurana.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_030682.2) annotated using gene prediction method: Gnomon,
            supported by mRNA and EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            On Dec 18, 2019 this sequence version replaced XM_012964517.2.
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI
            Annotation Status           :: Full annotation
            Annotation Name             :: Xenopus tropicalis Annotation
                                           Release 104
            Annotation Version          :: 104
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 8.3
            Annotation Method           :: Best-placed RefSeq; Gnomon
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..5660
                     /organism="Xenopus tropicalis"
                     /mol_type="mRNA"
                     /strain="Nigerian"
                     /db_xref="taxon:8364"
                     /chromosome="6"
                     /sex="female"
                     /tissue_type="liver and blood"
                     /dev_stage="adult"
                     /note="F17 inbred"
     gene            1..5660
                     /gene="ago2"
                     /gene_synonym="Argonaute2; eif2c2"
                     /note="argonaute 2, RISC catalytic component; Derived by
                     automated computational analysis using gene prediction
                     method: Gnomon. Supporting evidence includes similarity
                     to: 1 mRNA, 68 ESTs, 5 Proteins, and 100% coverage of the
                     annotated genomic feature by RNAseq alignments, including
                     102 samples with support for all annotated introns"
                     /db_xref="GeneID:448205"
                     /db_xref="Xenbase:XB-GENE-1001916"
     CDS             308..2896
                     /gene="ago2"
                     /gene_synonym="Argonaute2; eif2c2"
                     /codon_start=1
                     /product="protein argonaute-2 isoform X1"
                     /protein_id="XP_012819971.1"
                     /db_xref="GeneID:448205"
                     /db_xref="Xenbase:XB-GENE-1001916"
                     /translation="
MYAGAGPVLVPPTPTPPLPMPAYTFKPPPRPDFGTSGRTIKLQANFFEMDIPKIEIYHYEIDIKPEKCPRRVNREIVEHMVQHFKAQIFGDRKPVFDGRKNLYTAMPLPIARDKQVELEVTLPGEGKDRIFKVAIKWMACVSLQALHDALSGRLPSVPFETIQALDVVMRHLPSMRYTPVGRSFFTASEGCANPLGGGREVWFGFHQSVRPSLWKMMLNIDVSATAFYKAQPVIEFMCEVLDFKSIEEQQKPLTDSQRVKFTKEIKGLKVEITHCGQMKRKYRVCNVTRRPASHQTFPLQQESGQTVECTVAQYFKDRHKLVLRYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTMIRATARSAPDRQEEISKLMRSASFNTDPFVREFGIMVKDDMTDVTGRVLQPPSILYGGRNKAIATPVQGVWDMRNKQFHTGIEIKVWAIACFAPQRQCTEVHLKTFTEQLRKISRDAGMPIQGQPCFCKYAQGADSVEPMFRHLKNTYTGLQLVVVILPGKTPVYAEVKRVGDTVLGMATQCVQMKNVQRTTPQTLSNLCLKINVKLGGVNNILLPQGRPPVFQQPVIFLGADVTHPPAGDGKKPSIAAVVGSMDAHPNRYCATVRVQQHRQEIIQDLSAMVRELLIQFYKSTRFKPTRIIFYRDGVSEGQFQQVLHHELLAIREACIKLEKDYQPGITFIVVQKRHHTRLFCTDRNERVGKSGNIPAGTTVDTKITHPSEFDFYLCSHAGIQGTSRPSHYHVLWDDNRFSSDELQILTYQLCHTYVRCTRSVSIPAPAYYAHLVAFRARYHLVDKEHDSAEGSHTSGQSNGRDQQALAKAVQVHQDTLRTMYFA"
     misc_feature    386..2890
                     /gene="ago2"
                     /gene_synonym="Argonaute2; eif2c2"
                     /note="protein argonaute; Provisional; Region: PLN03202"
                     /db_xref="CDD:215631"
     misc_feature    395..814
                     /gene="ago2"
                     /gene_synonym="Argonaute2; eif2c2"
                     /note="N-terminal domain of argonaute; Region: ArgoN;
                     pfam16486"
                     /db_xref="CDD:293095"
     misc_feature    845..994
                     /gene="ago2"
                     /gene_synonym="Argonaute2; eif2c2"
                     /note="Argonaute linker 1 domain; Region: ArgoL1;
                     pfam08699"
                     /db_xref="CDD:285861"
     misc_feature    995..1357
                     /gene="ago2"
                     /gene_synonym="Argonaute2; eif2c2"
                     /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(1151..1153,1196..1198,1238..1240,1250..1252,
                     1304..1306,1325..1327,1331..1333)
                     /gene="ago2"
                     /gene_synonym="Argonaute2; eif2c2"
                     /note="nucleic acid-binding interface [nucleotide
                     binding]; other site"
                     /db_xref="CDD:239212"
     misc_feature    1490..2767
                     /gene="ago2"
                     /gene_synonym="Argonaute2; eif2c2"
                     /note="Piwi_ago-like: 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...;
                     Region: Piwi_ago-like; cd04657"
                     /db_xref="CDD:240015"
     misc_feature    order(1901..1903,1913..1915,1949..1960,1967..1969,
                     1991..1993,2000..2002,2012..2014,2024..2026)
                     /gene="ago2"
                     /gene_synonym="Argonaute2; eif2c2"
                     /note="5' RNA guide strand anchoring site; other site"
                     /db_xref="CDD:240015"
     misc_feature    order(2105..2107,2111..2113,2321..2323,2735..2737)
                     /gene="ago2"
                     /gene_synonym="Argonaute2; eif2c2"
                     /note="active site"
                     /db_xref="CDD:240015"
ORIGIN      
tgcgccgagttcccgccccttgacgttgcgtgtcccgccccccagcctctgtccgccggccgttttcccctcagttcatgtcgcgcaaaagaaagagaaaaaaaaggaaagaagcgagagaagcgagaggcgggaactcggcgtattccctcccacacaccgtgccttacaccatggagccctaacggactgactggccgctctctgaggggttctgtgcacagcgaagggggcgggactggctgcgttaccccctgtgtctggaactttattttccccctcgcacttcgctcttggggccgcagacatgtacgccggggccgggccggtgctcgttccaccaaccccaacaccacctctcccaatgccggcgtataccttcaagcctccgccacggccagattttggtacctcagggaggaccatcaagctccaggccaacttttttgaaatggacattcccaaaattgaaatatatcactatgagattgatataaaaccagagaaatgccccagacgagtaaacagggaaatagttgaacacatggtccagcactttaaagctcaaatcttcggggatcgaaaaccagtgtttgatggaagaaaaaacctttacactgcaatgcctcttccgattgcaagagataaacaggtggagttagaagtcacactacctggggaagggaaagatcgcatcttcaaagttgcaatcaagtggatggcgtgtgtaagcttgcaggccctacatgatgcactgtctggtcgtcttcccagtgtcccttttgagacaattcaggctttagatgttgtgatgaggcatttaccttctatgaggtatacaccagttggtcgttctttttttactgcatctgaaggctgtgcaaatcctctcgggggtggcagagaagtttggtttggatttcatcagtccgtacggccgtcgctctggaaaatgatgctcaatatcgatgtgtctgctacagcattttacaaagcacaaccagtaattgagtttatgtgtgaagttctggattttaaaagcatcgaggagcaacagaaacctctgactgattcccaaagggttaaatttaccaaagaaattaaaggtttaaaagtggaaataactcactgtggacaaatgaaacggaaatacagagtttgcaacgtaacaaggcgaccagcaagtcatcaaacattccctctccagcaggagagtggacagacggtagaatgcaccgtcgcacagtactttaaggacagacacaaactagttctgcgttaccctcatttaccatgtttacaggtcgggcaggagcagaaacacacatacctcccacttgaggtatgcaatatagtggctggtcaaaggtgcataaagaaacttacggacaatcagacctccactatgatacgggcaactgctcgatctgctccagatcgccaagaagagatcagtaaattaatgcgaagtgcaagttttaatactgatccctttgtgcgagagtttggtataatggtgaaagatgacatgaccgatgtcacaggcagagtccttcaacctccttcaatcctttatggaggcaggaacaaagcaattgccacccctgtccagggtgtctgggacatgagaaacaaacagttccacaccggcattgaaataaaggtgtgggccatcgcctgctttgccccacaacggcagtgtactgaagttcacctcaagacatttacagaacagttgaggaagatctcacgtgatgccgggatgcctatccagggacagccgtgtttctgcaaatatgcccagggagcagatagcgttgagccaatgttcaggcatctgaagaatacttatacagggctacaactagtcgttgtaatacttcctgggaaaacccctgtctatgcggaagtgaaacgtgtgggggacactgttctgggaatggctactcagtgtgttcagatgaaaaatgtgcagaggaccacaccacaaaccttgtctaacctgtgcttaaaaatcaatgtaaaattaggaggcgtcaataacatcttgttgccccagggcagacctcctgtgtttcaacagcctgtcatatttcttggagctgatgttacccacccaccagcaggggacggcaaaaagccttcaattgctgcggttgtaggtagtatggatgcacaccccaaccgatactgtgccactgtgagggtacagcagcacaggcaagaaatcatccaggatttgtctgccatggttcgagagctgcttatccagttctacaagtcaacacgcttcaagcccacaagaatcatcttttacagagacggtgtctcggaaggacagtttcaacaggtgctccatcatgagcttctggccattagggaagcctgtattaaactggagaaggattaccagccgggaattacatttattgtagtgcaaaaaaggcatcacacacggctattctgtacagaccgaaatgagcgagtagggaagagtggaaatataccagccggtaccaccgtagacacaaagatcacccacccatcagagtttgatttttacctgtgcagtcacgctggtattcagggaacaagcaggccgtcgcactatcatgtcctgtgggatgacaatcgcttttcatcggatgagctgcagatcctcacttaccagctctgccacacttatgtccgttgcactcgctctgtatctatccctgctccagcatactatgctcacctggtggcattcagagcaaggtatcatttggtggataaagagcatgacagtgctgaagggagccatacatccggtcagagtaacgggagagatcagcaagcacttgctaaggcagtgcaggtacatcaggacacactgcgtacgatgtactttgcgtaacaggcgctgttatccagtgacttaatagcactcctggaaacggattcacacagaccagctgcacttagttgtttgtaaaatagtccatactacggcgactcccagcaaaaagtgcaatctaccggtaaccctgttgtttcccccactgtccaaccagccttccgtccgaaccgcttctcacattatgtttccattcacgatgcagacctgttgcgattaatgtagcttggagtttgcttggtatgggaatgtttacaaaggtgcagagagagaaacacgtacccatgtagaaaaactgaacacgtaacctcagggctttagacttttgctatggaataatgtttcggatcctgtattatccctgttcagttgctgaatttaatgtgatggttgctgtcagttgggttggttaaaaaaaaaggagctaaaaaaagagcttaaaaagaaaaaaaaggcattagcagaacatttgaagccttaaaatattgatattttttaattagcaaacgattttaccatatgtagctttttatgtgtcaaatgttctggtacataactctatgtacttcagagagtcagtcatattaatgaatttaatcatgactggagaggattagtgccctagtgtctccatctcatgcttttacatatattattacccggtgccattcagaacacactctccatagaaagtctcgtttatcgtatttgtgtctaaactctaacctttccaaagttgcttaccaatacgggtctgtggcaatcagtacaatcatgttaagctaatgtaaaaagaaaagaaaaacacaaaaaaaagaaaaaaaatatttctatttaccagtattaatatgacatgctatttattttatttacaaaaaaaacaaaatcatcatttttttttttaactttattttttaaatagcaacatatctattctgtgcatgggttaaatgagctgacatgtttaacctttctttgacaatgtgacctgtggtacaaggatttgttcttacaggctccaccgacagtgaatggattaaaaagaaaaatgaatttttaactgttttgttgctagaggtacttatcacacatttgaaaataacaaaaaaaaaaaccaaactttaaagggacaccgacactattttgacatccatgccaggcccagaaccagatttccttgtaatggtacttcccccaccaaatctccgtatattggggtgctttatcctgcctggtttctacatcccagtcataagaagccccgcgagtctgtttgctttttgctataggaacacacaatagcccagcttgctctgtttcttagccctgacttgggtggggggagagccatggtcctgggattggcacagaaattttgaaaaaatgaatgccggtgtccctttaatctggtagtgttacagctgcaaaatgtgaaaaaaaatcaagctgcatctgttcctttctagttattagcagtgctgcatttattgcaaagccagcaactggaagtccatttgtgatgatgtgatgaataggagaatgtgctttacgtactgcccctttaattcgagtccagatatcggcgcttacatagcctacaacaaaggaaagctttatttctctcacccgtgtcttgcaatacaacccgcgagcgcctcactcaatagatcaaatgcgacatgttgcttaaaggaggcagttatcatgtttaccttcagcgtgacatttatatgcaacccccaatggaacttttccttttgcttttgttagtaatatgcaattgtgtcacttctgtatctgaccatggatttgacttttttacacttaatagcaatagttatagcctcagttctcacctttgctactgtaataaaggcctgctttgatatgaaggaacgttctgcttggcgctgtgccctgctgtgggaaatggttataaataacggagcggcgttcccttatgatgtcattagcatttgcgccaatcaaaactccccagtgcggtatcgccctaaatcagctattttgtaactgatggtttgggacccaagaatggttcccctgctgtttagggtgagtttccttaatcgtgtgcagtttttttccccgacagtagagaacagtaattgaaataaggtgcttaattaattctgaatcaattttggggtctaaagctgattccctataagggagaaggttaggaaactctgccctcagtgaagcgtctagcacaccgccaaaaaaatggtggagtgtgttctctagacatagcaaaaaaaagtctgctccatctgtagtactactgagcctttattcaaacctgcagtctctgttggaggtactggagtttggtgtttgttccagccaaaatgtagagatgtaaaggctaaatgccaccctaaaggcatctgacagcagggtttgtgggttgagtacagttggccagtaagaacagctttctgttgacatatatgtccggtcagttgggcactgtggtcaaaacgggccgaatgtgggcatgtacagccagcttaatgtgttacaggacagaactcaagaatcagttactgctgtaatgtatactgcttgggtgcttttaaaggggaagtaaagtcttcccacaaggtttagggaaagcagacatttgtacagctctgtgtgttctagtagctctatataaatagttgtacaaacatacattttatttagtagctgtaaggtgcagcaacatagccccaacctcagatactcctaaaaaaaaaaa
//

by @meso_cacase at DBCLS
This page is licensed under a 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. [Full Text]