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2024-03-30 00:13:38, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       XM_041215270            3893 bp    mRNA    linear   VRT 03-MAY-2021
DEFINITION  PREDICTED: Carcharodon carcharias NRDE-2, necessary for RNA
            interference, domain containing (nrde2), transcript variant X2,
            mRNA.
ACCESSION   XM_041215270
VERSION     XM_041215270.1
DBLINK      BioProject: PRJNA725502
KEYWORDS    RefSeq.
SOURCE      Carcharodon carcharias (great white shark)
  ORGANISM  Carcharodon carcharias
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Chondrichthyes;
            Elasmobranchii; Galeomorphii; Galeoidea; Lamniformes; Alopiidae;
            Carcharodon.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_054486.1) 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             :: Carcharodon carcharias 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..3893
                     /organism="Carcharodon carcharias"
                     /mol_type="mRNA"
                     /isolate="sCarCar2"
                     /db_xref="taxon:13397"
                     /chromosome="20"
                     /sex="male"
                     /tissue_type="blood"
                     /dev_stage="juvenile"
                     /country="USA"
                     /lat_lon="33.782158 N 118.12249 W"
                     /collection_date="2019-01-30"
                     /collected_by="Chris Lowe, Kady Lyons"
     gene            1..3893
                     /gene="nrde2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Gnomon. Supporting evidence
                     includes similarity to: 4 Proteins, and 100% coverage of
                     the annotated genomic feature by RNAseq alignments,
                     including 1 sample with support for all annotated introns"
                     /db_xref="GeneID:121292824"
     CDS             319..3393
                     /gene="nrde2"
                     /codon_start=1
                     /product="nuclear exosome regulator NRDE2 isoform X2"
                     /protein_id="XP_041071204.1"
                     /db_xref="GeneID:121292824"
                     /translation="
MWLDDLHSQTTQTFCIDRKADPANWEYKSLYRGDLARYKRSMDACLGLNTKKQHVIWEDSSRKKKKAKKRDDRYYSTSSLQLLNTDSVPVHRGEALQEDVPVPGPGSFIRVPDWVENDGKCSGTITCFNPLGIYDASTTLWLQGKGLEEQAEQVRVPLDSSEKINSTTMARVEKFNRMLREDPGNVRTWMEFVHFQDELMKGPNPYTATAEEAEKRKRSRRVVLEKKLAILEQAIESNPNNAELKVARLELAKESWEPSTLVSEWKKVVFLHPNHTALWQRYLLFCQSQFSTFSTSKVSSIYGKCLSTLAAALDGTLLSHPALPDTEEAMLAIFLQQCHFLRQTGHSEKAIALFQALIDFTFFKPDSVAGLITKAQVEFFEPFWDSDEPRFGEEGARGWKAWMRQQEKGGWVVLNEQVDDEEEDEDGEEISDKSLPKWQLWIQVESARDSKHWLPWRADKAKRQTEEDCEDPDRQVLFDDVGSSMFKISSPHLKFQLMSSFFQFLGIPAGCSLPPSCLNVALDELSLFGGGSSDRRPLSWSDSPASGVSAVGFMAAVPNQRRTAGHCREGEDFIRTAFHQALPLFAGEERSELALSWLRYEKSKVVRSLQFRNKKQLKSQGKRSKKLAKNLLKETENRNNLALWKEYAHLEWLLGNVEDSRKVFDTAIAMAVTQGLKSSALCDLCFLYASLELELMGSIARSATCRAVYILTRFAQGDAYSPYTGEALPVNVLKARKTYEHCLQDWLTNDLTSPRLSPGQLVSLVACFALFQYLTVGIQAADALYKQASERLIGLSSSLDKMQPAKSTWGHSVISASERLTMMHVTLLKFHMRTSVYPLGPLRETLTRALRQYPGNHDLWELYLQVESKSHSASRARKFFDAITRTAKNIILPWLFAIYAEERRKERVDSVQRADVGPVYSTLPETGLSNRIKALFEHAVQSEAGVHCVLLWRMYLSFTVTQGNVERIKGLFYRALQACPWAKVLYLDAVGHLPGQLQEILDLMTEKEIRIRIPIEELEILMED"
     misc_feature    355..657
                     /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(355..381,388..393,403..408,412..414,418..462,
                     469..477,481..489,511..519,529..534,538..543,550..570,
                     598..609,628..657)
                     /gene="nrde2"
                     /note="MTR4 binding site [polypeptide binding]; other
                     site"
                     /db_xref="CDD:412062"
     misc_feature    838..1836
                     /gene="nrde2"
                     /note="necessary for RNA interference; Region: NRDE-2;
                     pfam08424"
                     /db_xref="CDD:429988"
ORIGIN      
gtggggcctacacaggatggagcccggctcaggctcgctattcccggcgtttggtgaaaggaaagcactttgtggaagcaggtctgaagtgtttgttcaaaattacctgggggtgtgttggaccatgccgaagcagatgtcccagccaaaaggaggaagaagaaaaagaagaaacatcggcaacacaaaaaggataagacgaaaaatagggaggatcgcaccagcagcgactctgatcctgagttactcggagataaagccaaagatgcttgtgcagtgaggtctgaagccagttctgatcttcctcagggtaaattcatgtggctggatgacctccattcacagactacacagaccttctgtattgatagaaaggctgatcctgccaactgggagtacaaatcactctatcgtggagatctggcaagatataagaggagcatggacgcctgccttggcctcaacaccaaaaagcagcacgttatctgggaagattcatcccgaaagaagaaaaaggcaaagaaaagagatgatcgatattacagcacatctagccttcagctcttgaacactgactcagttcctgttcaccgtggagaggctttacaagaagatgttcctgtgcctggcccaggctccttcatacgagttccagactgggtagagaatgacggtaaatgctcaggcaccatcacctgcttcaatccgcttgggatttatgatgcatccaccactctgtggctacagggaaaaggcctagaggagcaggcagagcaagtccgagtgcccctggacagcagtgagaagataaactcaactacaatggccagagtggagaagttcaatagaatgttgagagaagaccctgggaatgtccgaacctggatggagtttgttcattttcaggatgaattaatgaaaggcccaaatccatatacagccactgcagaggaagctgaaaaaaggaagaggtcacgacgggttgtcttggagaagaagctggccattttggaacaggccattgaaagcaatcccaacaacgctgaactgaaagtagcccggctggagctcgccaaggaatcttgggaaccgtccactctggtcagtgaatggaaaaaagtggtctttcttcacccaaaccacaccgccctctggcagaggtacctcctgttctgccagagccagttcagcaccttctcgacatcgaaggtgagcagtatctacggcaagtgcctcagcactctggcagctgctctggatggtaccctattatcccatcctgcgttacctgacacggaagaagccatgcttgcaattttcctgcagcagtgtcatttcttgcgacagactggccactcagagaaagccattgccctcttccaggctctcattgacttcaccttcttcaaacctgacagtgttgctggcctgataaccaaggcacaggtagaattctttgagccgttctgggacagtgacgaaccccggttcggagaagaaggcgcaagaggctggaaggcgtggatgcggcagcaggaaaagggtggctgggttgtcctgaatgagcaagttgatgacgaggaggaggatgaagatggggaagagatcagtgataagtcactacccaagtggcagctctggatacaggtggagagcgcccgtgactccaaacactggttgccatggcgagctgataaggcaaagcgtcagactgaagaggactgtgaggatcctgacagacaggtgctgtttgacgacgttggttcttcaatgttcaaaatctccagcccacatctgaagttccagctcatgtcctccttcttccagtttctgggaattccagctgggtgcagcctccctccctcctgcctgaacgtggcgttggatgagctcagcctgtttggaggcggttcgagtgacaggagaccgctgtcttggtctgactctccagcctctggggtcagtgctgtcgggttcatggctgcagtgcccaatcagcggaggacagctggccactgcagagaaggggaggacttcatacggacagcgtttcaccaggccttgcccctgtttgccggggaagaacggtcagagcttgcactgagctggctgcggtatgaaaaatccaaggttgtgaggagcctgcagttcaggaacaagaaacagctgaaatctcaggggaagaggagcaagaaactagccaaaaaccttctgaaggagactgaaaacaggaacaatctggccctctggaaggaatacgcccacttggaatggctactgggcaatgtggaggactcgagaaaagtctttgacacagccatcgctatggctgtcactcagggcctgaagagctccgcactgtgtgatctctgcttcctctatgcctcactggagctggagttaatggggagcattgccaggtcagcaacatgtcgagcagtttacatcctaaccagatttgcccagggtgatgcctattcaccttacacaggtgaagcactcccagttaatgtccttaaggctcgaaaaacatatgagcattgtttacaggactggttaaccaatgacttaacttcaccacgcctgtcacctggtcagctggtaagcctcgtagcttgttttgcgctcttccagtacctcacagtgggcattcaggctgctgacgcactctacaagcaggcttctgaaaggcttataggcctctcctcctcattggacaaaatgcaacccgccaagagcacctggggacacagtgtgatatctgcttccgagaggctgaccatgatgcacgtgacgctgctgaagttccacatgaggaccagtgtgtatccattgggacctcttcgcgagactcttacacgtgctttgaggcagtaccctggtaaccacgatctttgggagctgtacttgcaggttgagagcaaatctcacagtgccagccgggccagaaagttctttgatgccatcaccaggactgcaaagaacataatcctgccatggctgtttgcaatttatgcagaagagcggagaaaggaacgtgtcgattctgtgcaaagggctgatgttgggcctgtgtacagcactctcccagaaacaggtcttagcaatcgaatcaaagcactgtttgagcatgctgttcagtcggaggctggtgtgcactgtgttttactctggaggatgtacctgagctttactgttactcaagggaatgttgagaggataaagggcctgttttatcgagctctacaggcgtgtccctgggcaaaggtcctgtacctggatgcagttggccacttacctgggcaactccaagaaatattggacttaatgactgaaaaggagatccgaatccgtattcctattgaggaactggaaattctcatggaagattgagcggggaagaaagaagagttgtatttacatagtgcctttcacatccttcactgtcggaaatgaggcagacaattagtgcaaagccaagctcccaacaacagcaatgagataaatgaccaaataatgtattgactgggggatgaatgttggccagggcagctgttatgtaggtaaatgcagaagcactgacagcaagaagttcccaacaatccattgggaccaatttggtgaaactggttgagtgggaaatgtcagcaggatatcgagcaaacagcctcctctttaaatggtaccacgggatctttgatattcaccaaaaccagcagatgggacgcagtttaacgtctcatcctaaggatggattattaaacattcgataggaggatctaaagaaacttagaatatttattttgtaataaatgataaaacatgtacagttactgtttatttgtatttatattgtttgctgagctggaaagtaaagtttgcgaattatattt
//

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]