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2024-03-29 07:37:19, GGRNA.v2 : RefSeq release 222 (Jan, 2024)

LOCUS       XM_048855802            6534 bp    mRNA    linear   VRT 02-JUL-2022
DEFINITION  PREDICTED: Caretta caretta NRDE-2, necessary for RNA interference,
            domain containing (NRDE2), transcript variant X3, mRNA.
ACCESSION   XM_048855802
VERSION     XM_048855802.1
DBLINK      BioProject: PRJNA853764
KEYWORDS    RefSeq.
SOURCE      Caretta caretta (Loggerhead turtle)
  ORGANISM  Caretta caretta
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Archelosauria; Testudinata; Testudines; Cryptodira; Durocryptodira;
            Americhelydia; Chelonioidea; Cheloniidae; Caretta.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_064478) annotated using gene prediction method: Gnomon.
            Also see:
                Documentation of NCBI's Annotation Process
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI RefSeq
            Annotation Status           :: Full annotation
            Annotation Name             :: Caretta caretta Annotation Release
                                           100
            Annotation Version          :: 100
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 10.0
            Annotation Method           :: Best-placed RefSeq; Gnomon
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..6534
                     /organism="Caretta caretta"
                     /mol_type="mRNA"
                     /isolate="SJ_126:Eziel1"
                     /db_xref="taxon:8467"
                     /chromosome="6"
                     /sex="female"
                     /tissue_type="blood"
                     /dev_stage="adult"
                     /collection_date="2020-06-05"
                     /collected_by="Fondazione Cetacea hospital"
     gene            1..6534
                     /gene="NRDE2"
                     /note="NRDE-2, necessary for RNA interference, domain
                     containing; Derived by automated computational analysis
                     using gene prediction method: Gnomon. Supporting evidence
                     includes similarity to: 2 Proteins"
                     /db_xref="GeneID:125639178"
     CDS             491..3964
                     /gene="NRDE2"
                     /codon_start=1
                     /product="nuclear exosome regulator NRDE2 isoform X3"
                     /protein_id="XP_048711759.1"
                     /db_xref="GeneID:125639178"
                     /translation="
MKNMISNFSITEEELDWLSNPSFSTEDALKLHQHTAKASDPAPKRSQFISRSPSRSELSGGSDTNEDLKKSTKKRKGKKKKHHHHKKRKKKTREESSNSESDLDSECMRDKPRGSDTNREREAATLNLEDITSNVATNRFVWLEDIQALTAETFRTDKKPDPANWEYKSLYRGDIARYKRKGDSCLGIDLKKQCITWESSIVEKKQSPNRPERYFTKNSVKLLTTDGIPVYSKSQTSFGSSTFIPVSQLDSDAPTTTTCVNPLGIYDPLTTLWLQGKGPPEHETLKQQASQETSGNVNSILMAKVEEYNRMVRENPRDVHTWMEFVSFQDEIMRGPSPYAIKEGEQEIRRKSFKLILEKKLAILERAIESNPNDVDLKLAKLKLCTEFWEPSTLIKEWQKLVFLHPNNPLLWQKYLLFCQSQFSTFSVSKVHSLYGKCLSTLAAVQDGSMVSHPILPGTEEAMLAVFLQQCHFLRQAGHSEKAVSLFQALVDFTFFKPDSVKDLPTRGQVEFFEPFWDSGEPRFGEKGAKGWKSWMHQQEKGGWIIINKPDDEEEDGDEDQEIKDKTLPKWQIWLDIECSRETRHWLPWRPDKTKKQTEEDCEDPERQVLFDDLGPSLIRLSSPDLQFQLLYSFLQFLGVPCGCSLFPSNLYIAMDENNIFDNGQSERPLTSFDSLLSGVNSIGHMDTMTRGRQHIGHSKEGEEFIQNVFHLILPLFSGKEKSNLSVCWLQYEISKVGQCLQAKNKKKLKSQGKKSKKLAKNLLKASENRNNLSLWKLYAYLEWLLGNTEDARKVFDTALCLAGTEGMRNTQLCSLSLLYASLEVELLESLEETVMSRAVHILTKLAESGPYVPYPGHVLSVNILKARKAYEHALQDYLNESPVSNWDQVSSSNQLVSLVGCYALFQYLTVGIDAAVLICRHISEKLKGSASRKFEGIGENLGIHNFPTALEAVTLMHTNLLRYHMKVSIYPLNPLREALTEALKLYPSNQSLWRSYIQIQSKSHNASKARRFFDSVTRSAKSLEPWLFAIQAEEMRKKLVENVQRVDVGEIYSTIPETGLKNRIKTLFEHAIQSENGAHCPLLWRMYLNFLFSLGDKERSKGLFYKALQNCPWAKVLYMDAIEYFPDQLQETLDLMTEKELRVRVPIEELELLLED"
     misc_feature    947..1228
                     /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(947..973,980..985,995..1000,1004..1006,1010..1054,
                     1061..1069,1073..1081,1103..1111,1121..1126,1130..1135,
                     1142..1162,1187..1198,1205..1228)
                     /gene="NRDE2"
                     /note="MTR4 binding site [polypeptide binding]; other
                     site"
                     /db_xref="CDD:412062"
     misc_feature    1409..2407
                     /gene="NRDE2"
                     /note="necessary for RNA interference; Region: NRDE-2;
                     pfam08424"
                     /db_xref="CDD:429988"
     polyA_site      6534
                     /gene="NRDE2"
                     /experiment="COORDINATES: polyA evidence [ECO:0006239]"
ORIGIN      
gctgtcgcgcagcggcgggggagtggcgcctttcagacgcgggagctggccgcagagcggcgcgcgcgggggcagaagctgggcgcgcgcctttgtggggaggatgcgcgtgcggatccagcaagctctgatacttgcagcggtggcagggactgggctcaggcgaagtatcaggtgtggccggagggagcttttctccttccagacccaatcctcccccacctttaaaaaaaaacaaaaaacctcagcttctgctttagaaagcagccaaaagacaggaacagcctgtcgtctgagcgcgcccctgtccaaacacacagagctccaagagctgcaaactgggtgttaaaatctctcttactcccctgctgccgtgggtgcaagaagcatttactggaggggttttcagactgtggcaatgggaacgacagaattctgttgttgaagggtgagtcagcaacaagtctgtgaacacaaggtatatctttttatgaagaatatgatcagcaacttctccatcactgaagaagaattggactggcttagcaatccaagcttctccacagaagatgcactgaaactgcaccagcacactgcaaaggcttcagatcctgctcctaagagatcacaatttataagcaggagtccttcaaggtcagagctctcaggaggaagtgacaccaatgaagatctaaaaaaatcaactaagaaaaggaaagggaaaaagaaaaagcatcatcaccacaaaaaaagaaaaaagaaaaccagagaagaatcaagtaacagtgagtcagacttggacagtgagtgtatgagggataaacctagaggaagtgacacaaaccgtgaaagagaagcagcaacattgaatctagaagacattacatcaaatgttgccaccaatcgctttgtttggcttgaggatattcaggctttgacagcagaaaccttcagaacagacaagaaaccagaccctgcaaactgggaatacaagtcactgtatcgaggggacatagcaagatacaagcggaaaggtgactcatgccttggtattgacctaaagaaacaatgtataacttgggaaagttccattgtagaaaagaaacaatcccccaaccgacctgaacgctacttcacgaagaatagtgtgaaattattgaccacagatggaattccagtttacagtaaaagccaaacttcatttggttcaagcacttttataccagtttcacaactggacagtgatgctcctactacaacaacctgtgtgaatcctcttgggatttatgatccattgaccacactctggttgcaaggaaaaggtcccccagagcatgagactttaaagcagcaggcatcccaagagaccagtgggaatgttaactctattctaatggcaaaagtggaagaatataataggatggtcagagaaaatccaagagatgttcacacttggatggaatttgtttcttttcaggatgaaataatgagaggacctagcccttatgccatcaaagagggagagcaggaaataaggagaaaatcattcaagctaatcctagaaaagaaactggccattttagagagagctattgaaagcaacccaaatgatgttgatctgaaacttgccaagctgaagctttgtacagaattctgggaaccatcaactttgatcaaagaatggcagaagctggtttttctgcatcccaataatccactgctgtggcagaaatatctcttattttgtcaaagtcagttcagcaccttttcagtttcaaaagtccatagtttatatggaaaatgtttgagcactttggcagctgtacaggatggcagcatggtatcacatcctatactacctggcacagaggaagctatgttagctgtctttcttcagcagtgccattttcttagacaggcgggccattctgagaaagctgtgtctttgttccaagccctggttgatttcaccttctttaaacctgacagcgtaaaagatctgccaacaagaggacaggtagagttctttgaaccattttgggatagtggagagcctcggtttggagaaaaaggagcaaaaggctggaaatcatggatgcatcaacaagaaaagggaggctggattatcatcaataaacctgatgatgaggaggaagatggagatgaagatcaagaaataaaggataaaactctacccaaatggcaaatttggctggacattgaatgttcccgtgaaacaaggcattggctgccttggcgacctgacaaaactaaaaagcagactgaagaagattgtgaagatccggagagacaggtattgtttgatgatcttgggccatctttaatcagactttctagtccagatcttcagtttcagctgctgtactcatttctgcaattcttgggagttccatgtgggtgtagtctctttccttcaaatctctatatcgcaatggatgagaacaacatctttgacaatgggcagtctgaaaggccgctgacttcttttgactcgctgctttctggagtcaatagtattggccatatggacacaatgaccagagggagacagcacataggacacagtaaggaaggagaggagttcatacagaatgtctttcatttaatattgccattattttcaggaaaggaaaagtcaaacctttctgtctgttggctacaatatgaaatctcaaaggttggtcaatgtctccaagcaaaaaacaagaagaaactgaagtcacagggaaagaaaagcaaaaaactagccaagaatctccttaaggcatctgaaaaccgaaacaacctttccctctggaaactgtatgcctacttggaatggttacttggcaacacagaagatgctagaaaagtatttgatacagctctttgcttggcaggaactgaaggaatgagaaatacccaactctgtagtctgagcctgctttatgcttcactggaagtggagctactagagagtctggaggaaactgttatgtcacgtgctgtacatatattgaccaaactggctgaaagtgggccatatgtaccttatcctgggcacgtgttatctgtgaatatcttgaaagctcggaaggcatatgagcatgcgttgcaagattatttaaatgaaagtccagtctctaattgggatcaggtcagcagttctaaccaactggttagtttagttggttgttatgcacttttccagtatttgactgttgggattgatgctgctgtattaatatgtagacatatttctgaaaagcttaaaggttctgcttcacggaagtttgaaggtattggagaaaatcttggcattcataatttccccactgctcttgaagcagtcacactcatgcacacaaatttactcaggtaccatatgaaagttagcatttaccctttaaatccactgcgagaggcactaacggaagctttgaagctgtatcctagcaaccagtctctttggaggtcatatatccagatccaaagcaagtctcacaatgctagcaaagcacgaagattttttgatagtgtcacaaggtctgctaagtccctagagccgtggctgtttgcaatccaagcagaggagatgagaaagaagcttgttgagaatgttcagagagtagatgttggagaaatatattcaacaattcctgaaactggattaaaaaatcggatcaaaactttatttgaacacgcaattcagagtgaaaacggtgcccattgtccgttgttgtggagaatgtatttgaattttctgttttctctaggagataaagaaaggagcaaaggactgttttataaagcccttcagaactgtccctgggcaaaggtgctgtatatggatgcaatagagtattttccagatcaactgcaagagaccctagatctaatgactgaaaaagaattgagagtaagggtacctatagaagaactggaattgctactggaagattaaaagaagatggtgcaagaacaaacaagaaaaagaaaaaacaaacaaaaaagggaattttgatgtccaaaagaccaactataatggtcttcaaccattatctctgactgggacttcaacggactatgcacatacttttcttactaagaataatttgttaaaaactttgctattactgtgccacaccactagctgtaaataccctagaatttgttccacatcttgtagtgggctgctttacacatgtaaatacatctgtttttctggaaagtgcagcgaaatccacaaaatgatacttaccgttaattaatttgctgttggaccccatctacaactcgtatgctacagtttaatacagccattcccttgaattcagtggaatgtcaagacatgcctactacaatttgctaggcagcacaggaagtaaacatctgccaaatgtaccctttacaatctgctgctgtcaacaggctaaatatgtcctgcttggtgtggatgtatatataaatatccacgtatgttccagtatcttgctttctgtacaaaacaagaagataagtaaaactcttgaaaaaatatccaagcaacaattagctcaattgataaactgttaacttgtcaaacaagttttggcttttatcagctttgtctttgcatgtgtacatgatatgacaattctaatgtaaatatttatgaaaaacatacttaaatattttaatttcattggaacttggattttttattttttaaatgttaattttggtgaggaaaatgtatacatctttatttttaatacctagattttttctagcagtaagtttttgttttgttttaaatacgcaagctattataattaacttccctgtactcccaacatacattgggtaattgtcatgagagaaagaaaatggtaattctgttttgaggtgccgcttgctaaggtgactgctcaggatattagactgtttatagcaactctgtactttacaggctagtcgacactgatataagatggaatatggcaactgtttaacagtgtatagcatattttttccacttcccattataaacaaatgtgtaatgttactatgttcagacgaaaataaatagggaatttacttatatagaaagtgctaaaatatgaacaagacactggatttcacacccttgttgttgagactgcaaatgatgaggatctgagttttcatctgtgaaagaaactacctccaacagcagagccctttaatatcatatggggtattggttttgtatcgactctgaaggaagagtgcgagctactcaatcacttatacttatctctgccgcaatgagatacaccatggagggctcctgtccagcccaaccctggtcagctgatgagatctgttagcattgcagcacagactaagtccattttagtttgcattgtaattcatttatccatgttgtgaacgtattttgaatagagatggggatgtgcaaatgtttgaccatgttcttaaattttataatacttctgtagcaacttttactgaagatcttaaattgctttacttagtaaatttagcctcatattatcactctgattaagtgcaagtatggccacatttttgtttcaaaattaatggattcagtgctatttttctttttaaaaaatccattacttctaaaaccccagtttcatgtgagtctgagagatggcaggaacactcaaattagagctagcagcttgttactgggtggtgggtgaagaaagagaggtcagactctaacttttctgtttctttggtggatcaaaaattgagtcactcattctctgttcccctttgagatgtggccaatggtaggggtgtggaagaggatctggcatgcctagagtctgcccacccttggaggtctgtttctgctttgctacattgctttgctttttctcccatgggatggggaagttcctggagctcctgctctatattattctccgcctctctccctacattcatcctcttgctcacacttgtccattttctcgccttctagctcactttaccctgctcctcctctcccagcactagagctagaacgtttgtgatttcatgggtctcatttctcatgcataagagcaagtcattgactccactccaccctctgagaagtgtaagtgtaagcaggttgggggtggtgggtgcaagcccatttccccagacccttttctccgcacctgaagactaagagcagcaacaatggctggctggcccccagttccatgaacttactgtacagtgctgtatgcagatgtaattgccattccttattcttacatgatatttctcctgcttatgtatctgtgttagccctcttaaccacagctttaacctggtagcttatgttcagttggttgtgcaccatgaccctaaatctatttgagtcactgctttccaagatacagttcctcattgtgtaagtgtgacctacattctgtgttcttggcagtttggctgtattaaaacacatgttcaagtgagcccagcttattttgtgatccagattgctttataaaactcacctggccttca
//

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]