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

2024-03-29 14:41:10, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       XM_023986851            4248 bp    mRNA    linear   VRT 23-FEB-2018
DEFINITION  PREDICTED: Salvelinus alpinus NRDE-2, necessary for RNA
            interference, domain containing (nrde2), transcript variant X1,
            mRNA.
ACCESSION   XM_023986851
VERSION     XM_023986851.1
DBLINK      BioProject: PRJNA433373
KEYWORDS    RefSeq.
SOURCE      Salvelinus alpinus (Arctic char)
  ORGANISM  Salvelinus alpinus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Actinopterygii; Neopterygii; Teleostei; Protacanthopterygii;
            Salmoniformes; Salmonidae; Salmoninae; Salvelinus.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_036843.1) 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             :: Salvelinus alpinus Annotation
                                           Release 101
            Annotation Version          :: 101
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 8.0
            Annotation Method           :: Best-placed RefSeq; Gnomon
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..4248
                     /organism="Salvelinus alpinus"
                     /mol_type="mRNA"
                     /isolate="IW2-2015"
                     /db_xref="taxon:8036"
                     /tissue_type="liver"
                     /dev_stage="juvenile"
                     /collected_by="Jon Lucas"
                     /linkage_group="LG4q.2"
     gene            1..4248
                     /gene="nrde2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Gnomon. Supporting evidence
                     includes similarity to: 3 Proteins, and 100% coverage of
                     the annotated genomic feature by RNAseq alignments,
                     including 14 samples with support for all annotated
                     introns"
                     /db_xref="GeneID:111963423"
     CDS             525..4001
                     /gene="nrde2"
                     /codon_start=1
                     /product="protein NRDE2 homolog isoform X1"
                     /protein_id="XP_023842619.1"
                     /db_xref="GeneID:111963423"
                     /translation="
MRLFTRRAINMALFPAFAGLSNTKAENAPKELEWLSNQSFRTDDALSLHQRATEKANETQSAETSRLVIPEREDKNDVQSNKKKKKEKKKKKKKKHKKKSGEPSPASSGSDSDTIYPSDLLKKAESTPPSEEAQFQVEGSFVWLDDLQTPTDRPFCVDRRADRANWEYKSLYRGDIARYKRKGSSSLGLDLRSQAVSWAESGPEKKRVDRRQRPNRYFSPTVRQLLMSDGKPTLPRPPQECTTTTLPFIPVPSCLEGEAEGGASAKGQGSWVNPLGVYDSSTSLWLQGKGKAEHGXAEEQPSTPRDNAAVMLAERVEDFNRRLRETPTDTHTWLQFVLFQDEVAGAPGVFGDISENETERRKRSVXATLEKKVAILDRAVENNPSCVELKLERLRLCRELWEPAALLKEWKKLVFLHPNSAPLWRKYLLFMQSHFSTFSVSKVNTVYGKCLSTLAAVQDGSMVSHQVLPGTDEHMXAIFLQQCHFLRQAGHSEKAVCLFQGLLDFTFFKPDTVKDLPTRQQVEFFEPFWDSGEPRVGERGARGWRAWMTQHERGGWLQPSEQDDGDEEDQEELEVKDKTWPKWRIWLDVETSREAIHWLPWRPDKTKGQSVEDCEDPDRQVLFDDIGPSMIRLVRPELQLCLLLSFLHFLGLPADTSCYSAPSCSLLLDDQALLGDVHHPDSPLTSYALPVPGVSPVGHMTSLQGARRGVGLCKQGEEFVDNVFQMVLPLFSAQERAVLSLHWIQYEKLKVLRCXRGRNKKRVKSQGKRSKRXAKRLLKEPENRGRLSLWREYAHLEWLLGNLDEAHKVLDTALGLGVAGGLADPALCDLCLLYAQLEVEEAWRRDTGGAGTIVRTAMXSPAVYILTKLAEGSSYAPFLGQLAPVAVLKARKAYEQAVVSSLPGLEEGAAGQGQSKNSRRVKGLVGCYALFQYLTVGVDAADAVYNLXRKRLEQHSSLSAQESASSEVMCDIQTLSSVSECEALAVQQVALLRYHTSTNVYPLSHIRLALTSALAHFASSTSLWQLYVQVENRYHSAGRARRFFHSVTKASASVVPRLFAISAEQQRKQLVDSVQRSGCYGDTLSTLPENGLSNRIRTLFENAIATEHGVHCPLLWRMYMNFLVSEGRWRSGKRDLLQGSTGRPMGQGFIHGRGATLP"
     misc_feature    984..1283
                     /gene="nrde2"
                     /note="MTR4-interacting domain (MID) found in nuclear
                     exosome regulator NRDE2 and similar proteins; Region:
                     NRDE2_MID; cd22200"
                     /db_xref="CDD:412062"
     misc_feature    order(984..1010,1017..1022,1032..1037,1041..1043,
                     1047..1091,1098..1106,1110..1118,1140..1148,1164..1169,
                     1173..1178,1185..1205,1224..1235,1254..1283)
                     /gene="nrde2"
                     /note="MTR4 binding site [polypeptide binding]; other
                     site"
                     /db_xref="CDD:412062"
     misc_feature    1479..2477
                     /gene="nrde2"
                     /note="necessary for RNA interference; Region: NRDE-2;
                     pfam08424"
                     /db_xref="CDD:429988"
ORIGIN      
ttatccaaattctgcatgctgttttgtgattataaaaaaactcaaacctaataaggtgtcatatttacaaacgaaacagtaaatacaaaaatctgtaaatgattgacatacataggcacacaataagttgtgacattggctttggtcatgtggccaacagtgcagctgtagtataattcgacacattccggtctgtccagtgactactcactgcatcccgtgcctatgtatttaacggtttctgatgcgctcgagctggaacatggcgctctactttatgcaacgcactgttttatctctgcggaagaatactcaaatacactggccagtgtctgttgacgctggagaaattgcagttgtttttgagacggcgcttctcattggatacagtggacctgcaatattctgctcattgtacgggagcccaggattggctacgttggatctgcaatgcgtcaagcaatggcgcctaatattacccgagtggtttaggaaaacggcgcgttcgagatgacgtcatattcatgcgactgtttacacgcagagctatcaacatggcactatttccagcttttgcaggattatcaaatacaaaagctgagaatgcacctaaagaactagaatggctgagcaatcaaagtttccgcactgacgacgctctttctcttcaccaacgagctactgagaaggccaacgaaacacaatcggcagaaacaagcagactcgttataccagagagggaggataagaatgacgtccaatccaacaagaagaaaaagaaggagaagaagaagaagaaaaagaagaagcacaagaagaagagtggagaaccctctccagcaagcagtggctcagattcagatactatctaccccagtgacctcttaaaaaaggctgagagcactcctcccagtgaggaggcgcagtttcaggtggaggggtcttttgtgtggttggatgacctccagacccccaccgatcggcccttctgcgtggacaggagagcagaccgtgccaactgggagtacaaatcactttacagaggagatatcgctaggtacaaaaggaaaggctcttcctctctgggtttggacctgcggtctcaggccgtgagctgggctgagtctggcccagagaagaagagagtggacaggagacagagacccaaccgctacttctcccccaccgtccgccagctgctgatgtctgatggcaaacccacyctgcccagacctccacaagagtgcaccaccaccaccttacccttcatccctgtgccctcctgtctggaaggtgaggcagaggggggtgcctctgccaaaggccagggctcctgggtcaaccccctgggggtgtatgactcctccacctccctgtggctccaggggaaggggaaggcggagcatggcayggcagaggaacaaccttctactcccagggacaatgctgccgtcatgctggctgaacgggtggaggacttcaacaggaggctgagggaaacccccacagacacacacacctggcttcagtttgtcctcttccaggacgaggtagctggggcgcctggggtgtttggtgacatctctgagaacgagaccgagcggcggaagaggtcagtgkgggcgacgctggagaagaaggtagccattttggatcgagcagtggagaataacccgagctgcgtggaactgaagctggagcgactgcggctctgtagggagctgtgggagccggcagccctgctgaaggagtggaaaaagctggtgttcctgcaccccaacagcgcccccctgtggaggaagtacctgctgttcatgcagagccacttcagtaccttctccgtgtcaaaggtcaacacggtatacgggaagtgtctgagcacgctggcggcggtgcaggatgggagcatggtttctcaccaggtgctgccgggcactgatgaacacatgktggccatcttcctccagcagtgtcatttcctcaggcaggctggccactcagagaaagctgtgtgtctgttccagggcctactggacttcaccttcttcaagccagacactgtcaaggacctacccaccagacaacaggtggagttctttgagccattctgggacagtggggagccccgtgtcggggagagaggggccaggggatggagagcctggatgacccagcaygagagagggggctggctccaacccagtgaacaagatgatggagatgaagaagatcaggaggaattggaggtgaaggataaaacctggcccaagtggaggatctggttggatgtggagacgtcacgtgaggccatccattggctgccgtggaggccggacaaaaccaagggccaatcggtggaggactgtgaggacccggaccgacaggtgctgtttgatgacattgggccgtctatgatccggcttgtccgcccagaactccagctatgtcttcttctgtccttcctgcacttcctgggtctgcctgctgacacttcgtgttacagcgccccctcctgtagcctgctgctggatgatcaggctctactgggggatgttcaccaccctgactcaccactgacctcctatgccctccctgttcctggggtcagccccgtgggtcacatgacctccctgcagggtgccaggaggggggtggggctgtgtaagcagggggaggagtttgtagacaacgtgttccagatggttctgcctctgttctctgctcaggagagagctgtcctctcactacactggatccagtatgagaagctcaaggtgctgaggtgcgrgcgcggcaggaacaagaagcgtgtgaaatcccaggggaagaggagcaagcgcrtggccaagcgsctgctgaaggagccagagaaccggggccgcctcagcctgtggagggagtacgcccacttggagtggctgctagggaatttggacgaagcccacaaggtgttrgacacagccctgggactgggcgtggcaggagggctggcagaccctgccctgtgtgacctctgcctgctctacgcccagctggaggtggaggaggcctggcgaagggatacgggcggggcagggacgattgttaggaccgccatgtrttcaccagcggtctatatcctcaccaagctagcagagggtagttcgtatgcccccttcttgggacagttggctccagtggccgtgctgaaggccaggaaggcctatgagcaggctgtggtgagctccctgcctgggctggaggagggggccgcggggcaggggcaatccaagaactccaggcgggtcaaaggtctggtggggtgttacgccctattccagtacctgactgtgggggtcgatgctgctgatgctgtctacaacctgmccaggaagaggctggagcaacactccagtctgtcagcccaggagtcagctagcagtgaagttatgtgtgacatacagacactgagctctgtctcagagtgtgaggccctggctgtccagcaggtggcgctgctgcgctaccacaccagcaccaacgtytacccacttagccatatcagactggcgctgacctcggccctggcccactttgcctccagcacttctctgtggcagttgtatgtgcaggtggagaaccgctaccacagcgccggcagggctcgccgcttcttccacagcgtgaccaaggctagtgccagtgtcgtgccacgcctgttcgccatcagcgcagagcagcaaaggaagcagctagtggactctgttcagaggtctggttgttatggcgacaccctctccaccctgccagagaacggcctgagcaatcgtatccgcacgctgtttgagaatgccatagcaacagagcacggggtccactgtccgttgctgtggaggatgtacatgaacttcctggtgtcagagggaaggtggagaagtgggaagagggatcttctacaaggctctacaggacgtcccatgggccaagggtttatacatggacgcggtgcaactcttccctgagcacgtgcaggagttcctggacctgatgacagagaaggagctcagactgagggttcccatggaggaggtggacatactgctggaggactgaggctctaaaacccttcccacagtgggcctggcttcctcagactctccactgtggatacccgaagttgtgcagtgaccaatagaacaaccaagtgtcctcatgaagaagaccattttacttttcaaacagacgtgtgaataaatgatgttacactta
//

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]