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2024-03-29 20:05:56, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       XM_014946455            4616 bp    mRNA    linear   VRT 09-DEC-2015
DEFINITION  PREDICTED: Calidris pugnax protein argonaute-1 (LOC106890550),
            mRNA.
ACCESSION   XM_014946455
VERSION     XM_014946455.1
DBLINK      BioProject: PRJNA305421
KEYWORDS    RefSeq; includes ab initio.
SOURCE      Calidris pugnax (ruff)
  ORGANISM  Calidris pugnax
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda;
            Coelurosauria; Aves; Neognathae; Charadriiformes; Scolopacidae;
            Calidris.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NW_015090879.1) 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
            Annotation Status           :: Full annotation
            Annotation Version          :: Calidris pugnax Annotation Release
                                           100
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 6.5
            Annotation Method           :: Best-placed RefSeq; Gnomon
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            ##Genome-Annotation-Data-END##
            
            ##RefSeq-Attributes-START##
            ab initio :: 1% of CDS bases
            ##RefSeq-Attributes-END##
FEATURES             Location/Qualifiers
     source          1..4616
                     /organism="Calidris pugnax"
                     /mol_type="mRNA"
                     /isolate="Ruff"
                     /db_xref="taxon:198806"
                     /chromosome="Unknown"
     gene            1..4616
                     /gene="LOC106890550"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Gnomon. Supporting evidence
                     includes similarity to: 2 mRNAs, 7 ESTs, 3 Proteins, and
                     99% coverage of the annotated genomic feature by RNAseq
                     alignments"
                     /db_xref="GeneID:106890550"
     CDS             199..3537
                     /gene="LOC106890550"
                     /codon_start=1
                     /product="protein argonaute-1"
                     /protein_id="XP_014801941.1"
                     /db_xref="GeneID:106890550"
                     /translation="
MVQHFKPQIFGDRKPVYDGKKNIYTVTALPIGNERVDFEVTIPGEGKDRIFKVSIKWMAIVSWRMLHEALVSGQIPVPLESVQALDVAMRHLASMRYTPVGRSFFSPPEGYYHPLGGGREVWFGFHQSVRPAMWKMMLNIDVSATAFYKAQPVIEFMCEVLDIRNIDEQPKPLTDSQRVRFTKEIKGLKVEVTHCGQMKRKYRVCNVTRRPASHQTFPLQLESGQTVECTVAQYFKQKYNLQLKYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTMIKATARSAPDRQEEISRLMKNASYNLDPYIQEFGIKVKDDMTEVTGRVLPAPILQYGGRNRAIATPNQGVWDMRGKQFYNGIEIKVWAIACFAPQKQCREEVLKNFTDQLRKISKDAGMPIQGQPCFCKYAQGADSVEPMFRHLKNTYSGLQLIIVILPGKTPVYAEVKRVGDTLLGMATQCVQVKNVVKTSPQTLSNLCLKINVKLGGINNILVPHQRSAVFQQPVIFLGADVTHPPAGDGKKPSITAVHPSCPASARFPLQLESGQTVECTVAQYFKQKYNLQLKYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTMIKATARSAPDRQEEISRLMKNASYNLDPYIQEFGIKVKDDMTEVTGRVLPAPILQYGGRNRAIATPNQGVWDMRGKQFYNGIEIKVWAIACFAPQKQCREEVLKNFTDQLRKISKDAGMPIQGQPCFCKYAQGADSVEPMFRHLKNTYSGLQLIIVILPGKTPVYAEVKRVGDTLLGMATQCVQVKNVVKTSPQTLSNLCLKINVKLGGINNILVPHQRSAVFQQPVIFLGADVTHPPAGDGKKPSITAVVGSMDAHPSRYCATVRVQRPRQEIIEDLSYMVRELLIQFYKSTRFKPTRIIFYRDGVPEGQLPQILHYELLAIRDACIKLEKDYQPGITYIVVQKRHHTRLFCADKNERIGKSGNIPAGTTVDTNITHPFEFDFYLCSHAGIQGTSRPSHYYVLWDDNRFTADELQILTYQLCHTYVRCTRSVSIPAPAYYARLVAFRARYHLVDKEHDSGEGSHISGQSNGRDPQALAKAVQVHQDTLRTMYFA"
     misc_feature    226..>1809
                     /gene="LOC106890550"
                     /note="protein argonaute; Provisional; Region: PLN03202"
                     /db_xref="CDD:215631"
     misc_feature    1141..>1809
                     /gene="LOC106890550"
                     /note="PIWI domain. Domain found in proteins involved in
                     RNA silencing. RNA silencing refers to a group of related
                     gene-silencing mechanisms mediated by short RNA molecules,
                     including siRNAs, miRNAs, and heterochromatin-related
                     guide RNAs. The central component...; Region: Piwi-like;
                     cl00628"
                     /db_xref="CDD:412485"
     misc_feature    order(1552..1554,1564..1566,1600..1611,1618..1620,
                     1642..1644,1651..1653,1663..1665,1675..1677)
                     /gene="LOC106890550"
                     /note="5' RNA guide strand anchoring site [active]"
                     /db_xref="CDD:239208"
     misc_feature    <1759..1998
                     /gene="LOC106890550"
                     /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(1792..1794,1837..1839,1879..1881,1891..1893,
                     1945..1947,1966..1968,1972..1974)
                     /gene="LOC106890550"
                     /note="nucleic acid-binding interface [nucleotide
                     binding]; other site"
                     /db_xref="CDD:239212"
     misc_feature    2131..3408
                     /gene="LOC106890550"
                     /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(2542..2544,2554..2556,2590..2601,2608..2610,
                     2632..2634,2641..2643,2653..2655,2665..2667)
                     /gene="LOC106890550"
                     /note="5' RNA guide strand anchoring site [active]"
                     /db_xref="CDD:240015"
     misc_feature    order(2746..2748,2752..2754,2962..2964,3376..3378)
                     /gene="LOC106890550"
                     /note="active site"
                     /db_xref="CDD:240015"
ORIGIN      
gcaggcgcatacctgccacccttgcagcaggtatttcaagcgccgcgtcggcccgggataggaaccgttgggaagcccatcaagctcttggccaactactttgaagtggacattcccaagatcgatgtgtatcattatgaagtggatatcaagcctgacaaatgtccacgcagagtcaacagggaggtcgtggagtacatggtacagcacttcaaaccacagatctttggtgaccgaaagccagtctatgatgggaagaagaacatttacactgtcacggccttacccattggaaacgagcgggttgactttgaggtgacgatcccaggggaaggcaaggacaggatattcaaggtctccatcaaatggatggccatcgtgagctggcgcatgctgcacgaagccctggtcagcgggcagatcccggtccctctggagtccgtccaggccctggatgttgccatgaggcacctggcttccatgaggtacactcctgtgggtcgctccttcttctcccctcctgaaggttattaccaccccctgggaggtggcagggaggtctggttcggtttccaccagtcggtcagacctgccatgtggaagatgatgctcaacattgatgtgtcggccaccgccttctacaaagcccagcccgtaatcgagttcatgtgtgaggtgctggacatccggaacatcgacgagcagccaaagcccctgacggactcacagagagtgcgtttcaccaaggagatcaaaggtctgaaagtcgaggtcacccactgcgggcagatgaagaggaaataccgtgtgtgtaacgttaccaggcggccggccagccaccagacgttccccctgcagctggagagcggtcagacagtggagtgcaccgtggcgcagtactttaagcagaaatacaacctgcagctgaaatacccccacctgccctgtctccaggtgggccaggagcagaagcacacctacctgcccttggaggtgtgcaacatcgtggcaggccagcggtgcatcaagaagctcacagacaatcaaacgtcaaccatgatcaaagcaacagccaggtctgccccagacaggcaggaggaaatcagtcgcctgatgaagaacgccagctacaacctggacccctacatccaggagtttgggatcaaggtgaaggacgacatgacggaggtgacagggagggtcctgccagcacccatcctgcagtatggaggccggaaccgggccattgcaacccccaaccagggcgtgtgggacatgagagggaagcagttctacaacggcatcgagatcaaagtctgggcgatcgcctgctttgccccgcagaagcagtgtcgagaggaggtgctgaagaacttcacggaccagctgcgcaagatctccaaagacgcggggatgcccatccagggccagccctgtttctgtaaatacgcccagggagcagacagtgtggagcccatgtttcgacacctcaagaacacctattcggggcttcagctcatcatcgtcatcctgccagggaaaaccccggtgtatgccgaggtgaagcgtgttggagacaccctcctgggaatggccacccagtgcgtccaggtcaagaacgtggtgaaaacctccccgcagaccctttccaacctctgcctcaagatcaacgtcaagcttggcgggatcaacaacatccttgtgcctcaccagcgctctgcggtctttcagcagccagtgatcttcctcggggccgatgtcactcacccgccggcaggagatgggaagaaaccctccataactgctgtgcatccttcgtgtcctgcctctgccaggttccccctgcagctggagagcggtcagacagtggagtgcaccgtggcgcagtactttaagcagaaatacaacctgcagctgaaatacccccacctgccctgtctccaggtgggccaggagcagaagcacacctacctgcccttggaggtgtgcaacatcgtggcaggccagcggtgcatcaagaagctcacagacaatcaaacgtcaaccatgatcaaagcaacagccaggtctgccccagacaggcaggaggaaatcagtcgcctgatgaagaacgccagctacaacctggacccctacatccaggagtttgggatcaaggtgaaggacgacatgacggaggtgacagggagggtcctgccagcacccatcctgcagtatggaggccggaaccgggccattgcaacccccaaccagggcgtgtgggacatgagagggaagcagttctacaacggcatcgagatcaaagtctgggcgatcgcctgctttgccccgcagaagcagtgtcgagaggaggtgctgaagaacttcacggaccagctgcgcaagatctccaaagacgcggggatgcccatccagggccagccctgtttctgtaaatacgcccagggagcagacagtgtggagcccatgtttcgacacctcaagaacacctattcggggcttcagctcatcatcgtcatcctgccagggaaaaccccggtgtatgccgaggtgaagcgtgttggagacaccctcctgggaatggccacccagtgcgtccaggtcaagaacgtggtgaaaacctccccgcagaccctttccaacctctgcctcaagatcaacgtcaagcttggcgggatcaacaacatccttgtgcctcaccagcgctctgcggtctttcagcagccagtgatcttcctcggggccgatgtcactcacccgccggcaggagatgggaagaaaccctccataactgctgttgtgggcagcatggatgcccaccccagccggtactgtgccaccgtgcgcgtccagcgtcctcgccaggaaatcatcgaggacttgtcctacatggtgagggagctcctcatccagttctacaaatccacccgtttcaaacccaccaggatcatcttctaccgcgacggcgttcccgaggggcagctcccacagatccttcactatgagctccttgccatccgagacgcctgcatcaaactggaaaaggattaccagcccggcatcacctacatcgtcgtccagaaaaggcatcacacccgtctcttctgcgcagacaagaacgagaggatcgggaagagcgggaacatcccagcaggaacaacagtggatacaaatatcacccacccctttgagttcgacttctacctgtgcagtcatgcaggcattcagggtacgagccggccgtcccattactacgtgctgtgggatgacaaccggttcaccgcggatgagctgcagatcctcacctaccagctgtgccatacctacgtgcgctgcacccgctccgtctccatcccggccccggcctactacgcccggctggtggccttccgagcccggtaccatctggtggacaaggagcacgacagtggcgagggcagccatatatccggacagagcaacggcagagacccccaggccttggcgaaggctgtgcaggttcatcaggacactttacgtaccatgtactttgcttgaaagcctaacttttgttacctcactcaagaaagctttcagatttgtaggagccatacaaaaaaggaagcgttgggacaccttgtgttttttttccaatgagaaatcactgcagggcaggcagcgtcgattcgaggcaggagaccagcaccacgggacagagagatccaacacctttgtaggattggaagagaccgatgattatttttttaatttttttctggctttgcaaaattttgacctgaccaaacacatgaaggcattcaaggaaagggataaaactcccaggaggcggaagcaggttttcatttttaagatgcaatactatagactcctgactgtgaactggcggatttggtcctccgttgcccaccaggcgctggtaggtattttttgtgggggttggggggaggggatttttagagccttaaaacagaagactagatttataaaactaatattttagaatatgagatgctttaatgggttaaggggaaaaaaaaaacaaaacaactagtttataggagaattctaacactaacaggtcccccctgcccccgaacgattccccccccatataatgtaaggcaccctagcacttagctcagaactgagaactgtcttcctcgtgttaaaagctagttcgctgctgccacttgaagcaacagtcacagacttttccatgggtgagtgccttactacgatgctgcaaaatttcaatgtttttaatcttgtaaggaaaatagtaatctcgtcttgatggtggtccatatttccatcggaaggagttaattttctatggtcctaagttgcagtttgtgttagatcccgacctcatggtggttaaactccattgaaagatgtgcactttcatacaggacacgtttaatggctgctgacccatttttgtttccaatgtactacttgttatttaaaactgtttctgacaaatgggggcatcttcatcccatgaggacagaaattgctatcgattttttttcttttttttttttttttctttttcttttttttttttttcctgaatttttatgatggacaccgggatttttttacgaaacatt
//

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]