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2024-03-29 16:40:09, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       XM_040122542            2843 bp    mRNA    linear   VRT 18-MAR-2021
DEFINITION  PREDICTED: Xiphias gladius argonaute RISC component 4 (ago4),
            transcript variant X1, mRNA.
ACCESSION   XM_040122542
VERSION     XM_040122542.1
DBLINK      BioProject: PRJNA713387
KEYWORDS    RefSeq.
SOURCE      Xiphias gladius (swordfish)
  ORGANISM  Xiphias gladius
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Actinopterygii; Neopterygii; Teleostei; Neoteleostei;
            Acanthomorphata; Carangaria; Istiophoriformes; Xiphiidae; Xiphias.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_053423.1) annotated using gene prediction method: Gnomon.
            Also see:
                Documentation of NCBI's Annotation Process
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI
            Annotation Status           :: Full annotation
            Annotation Name             :: Xiphias gladius Annotation Release
                                           100
            Annotation Version          :: 100
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 8.6
            Annotation Method           :: Best-placed RefSeq; Gnomon
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..2843
                     /organism="Xiphias gladius"
                     /mol_type="mRNA"
                     /isolate="SHS-SW01"
                     /db_xref="taxon:8245"
                     /chromosome="24"
                     /sex="male"
                     /tissue_type="muscle"
                     /dev_stage="adult"
                     /ecotype="Sanya"
                     /country="China: South Sea"
                     /breed="wild"
     gene            1..2843
                     /gene="ago4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Gnomon. Supporting evidence
                     includes similarity to: 2 Proteins, and 100% coverage of
                     the annotated genomic feature by RNAseq alignments,
                     including 1 sample with support for all annotated introns"
                     /db_xref="GeneID:120786836"
     CDS             181..2820
                     /gene="ago4"
                     /codon_start=1
                     /product="protein argonaute-4 isoform X1"
                     /protein_id="XP_039978476.1"
                     /db_xref="GeneID:120786836"
                     /translation="
MEALGPGPPAPTSLFQPPRRPGLGTVGKPIRLLANHFQVQIPKIDVYHYDIDIKPEKRPRRVNREVVDTMVRHFKMQIFGDRQPGYDGKRNMYTAHPLPIGRDRVDLEVTLPGEGKDQTFKVSLQWVSVVSLQMLLEALSGHLNEVPEDSVQALDVITRHLPSMRYTPVGRSFFSPPEGYYHPLGGGREVWFGFHQSVRPAMWNMMLNIDVSATAFYRAQPVIEFMCEVLDIQNINEQTKPLTDSQRVKFTKEIRGLKVEVTHCGQMKRKYRVCNVTRRPASHQTFPLQLENGQAMECTVAQYFKQKYNLQLKYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTMIKATARSAPDRQEEISRLVKSNSMVGGPDPYLKEFGIVVHNDMTEVTGRVLPAPMLQYGGRVSTDTGRDCGRGLSPQNKTVATPNQGVWDMRGKQFYAGIEIKVWAVACFAPQKQCREDLLKSFTDQLRKISKDAGMPIQGQPCFCKYAQGADSVEPMFKHLKMSYVGLQLIVVILPGKTPVYAEVKRVGDTLLGMATQCVQVKNVVKTSPQTLSNLCLKINAKLGGINNVLVPHQRPSVFQQPVIFLGADVTHPPAGDGKKPSIAAVVGSMDGHPSRYCATVRVQTSRQDMSQEQLFSQEVIQDLTNMVRELLIQFYKSTRFKPTRIIYYRGGVSEGQMKQVAWPELIAIRKACISLEEDYRPGITYIVVQKRHHTRLFCSDKAERVGKSGNVPAGTTVDSTITHPSEFDFYLCSHAGIQGTSRPSHYHVLWDDNCFTADELQLLTYQLCHTYVRCTRSVSIPAPAYYARLVAFRARYHLVDKDHDSAEGSHVSGQSNGRDPQALAKAVQIHYDTQHTMYFA"
     misc_feature    262..651
                     /gene="ago4"
                     /note="N-terminal domain of argonaute; Region: ArgoN;
                     pfam16486"
                     /db_xref="CDD:435368"
     misc_feature    682..834
                     /gene="ago4"
                     /note="Argonaute linker 1 domain; Region: ArgoL1;
                     pfam08699"
                     /db_xref="CDD:430160"
     misc_feature    835..1197
                     /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(991..993,1036..1038,1078..1080,1090..1092,
                     1144..1146,1165..1167,1171..1173)
                     /gene="ago4"
                     /note="nucleic acid-binding interface [nucleotide
                     binding]; other site"
                     /db_xref="CDD:239212"
     misc_feature    1336..2691
                     /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(1795..1797,1807..1809,1843..1854,1861..1863,
                     1885..1887,1894..1896,1906..1908,1918..1920)
                     /gene="ago4"
                     /note="5' RNA guide strand anchoring site [active]"
                     /db_xref="CDD:240015"
     misc_feature    order(1999..2001,2005..2007,2245..2247,2659..2661)
                     /gene="ago4"
                     /note="active site"
                     /db_xref="CDD:240015"
ORIGIN      
tcgtcagaagcaacagcagcggtagctcgggtcagtcagtccagtcagcagtcatccacgcatctatctatattcccttttcttaaattagccactttaagcttcgcgataccgcccccaatttcagcgtcggtacggagccgccaggccgggacagagacggagagagaggcctcggccatggaagcgctcggacccggcccgcctgcccctacctctctgtttcagcctccacggcgtcccggccttggcacggtggggaaacccatccggctccttgccaaccacttccaggtgcagattcccaagattgacgtctatcactatgatatcgacatcaagcctgagaaacggcctcggagggtcaacagggaggtggtggacaccatggtccggcacttcaagatgcagatctttggagaccgacagcctggctatgatgggaagaggaacatgtacacagcacatccactgccaatagggagagacagggtggatctggaggtgaccctgcctggtgaggggaaggatcagacgttcaaggtgtctttgcagtgggtgtccgtggtcagtcttcagatgctgctggaagccctctcaggccaccttaatgaggtccccgaagactctgttcaggctctggatgtcatcacacgccatctgccttccatgaggtacactccagtggggcgttcatttttctcccctccggagggctattaccatcctcttgggggaggcagggaggtgtggtttggtttccatcagtctgtccgtcctgccatgtggaacatgatgctcaacatcgatgtgtcagccacggcgttctaccgcgctcagcctgtgatagagttcatgtgcgaggtgcttgatatacagaacatcaacgaacagaccaagcccctgactgactcgcagcgcgtcaaattcaccaaggaaataagaggcttgaaagttgaggtcacacattgcggtcagatgaagaggaagtatcgtgtgtgcaatgtcacacgccgtcctgccagccaccaaacgttccccttacagcttgagaacggccaagccatggagtgcacagtagctcagtatttcaagcaaaagtacaatctgcagctcaagtatccacatttaccctgtctgcaagtagggcaggaacagaagcacacctatcttcccctggaggtctgtaacattgtagcaggccagcgctgtatcaagaaactgacagacaaccagacgtccaccatgattaaagctacagctcgctcagcccccgacagacaggaagagatcagcagactggtcaaaagcaacagcatggtcgggggcccggacccttacctgaaggaatttggcattgtggtgcacaatgacatgacagaggtgacggggcgtgttctcccagcgcccatgctgcagtatgggggccgggtgagtacagacacagggagggactgtggcaggggactctctccgcagaataaaactgtggccacgcccaaccagggcgtgtgggacatgagagggaagcagttctacgccggcattgagatcaaggtctgggctgtggcctgtttcgccccacagaaacagtgtcgggaggacctgctcaagagcttcactgaccagctgcgaaagatctcaaaggacgctgggatgcccattcaaggccagccatgtttctgtaaatacgcccaaggagctgacagtgtggagccgatgttcaaacacctcaaaatgtcttatgtaggtctgcagctgattgtggtcattctgcccggcaaaacccctgtctatgctgaagtaaagcgggtgggagacactctccttggcatggccacccagtgtgtccaggtgaagaacgtggtgaaaacgtcccctcagaccctctccaacctctgcctcaagatcaatgccaagctgggaggcatcaacaacgtcctggtgcctcatcagaggccctctgtgttccagcagccggtcatcttcttaggcgctgacgtgacacatcctccagccggtgatgggaagaagccgtccatcgcggcggtggtgggcagcatggacggccaccccagcagatactgtgcgacagtgcgagtccagacgtctcgacaagatatgtcccaggagcagctcttcagccaggaggtaatccaagacttgaccaacatggtgcgggagctgcttatccagttctacaaatccacgcgcttcaagcccacacgtatcatctattatcgtggcggcgtgtctgagggacagatgaaacaggtggcgtggccagagctgatagccatccgcaaggcctgtatcagtctggaggaggattataggccgggcattacctacattgtggtccagaaacgtcaccacactcgtctcttctgctctgacaaagccgagagggttgggaagagtggtaatgtcccagctggcaccacagtggacagtaccatcacgcatccgtccgagtttgacttctacctgtgcagccatgctgggattcagggaaccagccgaccgtcccactaccacgtcctgtgggacgacaactgcttcacggccgacgaactgcagctcctcacctaccagctgtgccacacctacgtccgctgcactcgttcagtctccatcccagcaccggcctactacgccaggctggtggctttccgagcccgctaccacctggtggacaaagaccatgacagtgctgaaggcagccatgtgtctggccagagtaacggccgggacccccaggcgctggccaaggcagttcagatccactatgatacccagcacaccatgtacttcgcctgagctagtgagcacgtcagccagtc
//

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]