2024-03-29 16:43:33, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_048855801 6179 bp mRNA linear VRT 02-JUL-2022 DEFINITION PREDICTED: Caretta caretta NRDE-2, necessary for RNA interference, domain containing (NRDE2), transcript variant X2, mRNA. ACCESSION XM_048855801 VERSION XM_048855801.1 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..6179 /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..6179 /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: 1 Protein" /db_xref="GeneID:125639178" CDS 100..3609 /gene="NRDE2" /codon_start=1 /product="nuclear exosome regulator NRDE2 isoform X2" /protein_id="XP_048711758.1" /db_xref="GeneID:125639178" /translation="
MALFPAFAGAAEPGETPASGSEGSRRELDWLSNPSFSTEDALKLHQHTAKASDPAPKRSQFIRSPSRSELSGGSDTNEDLKKSTKKRKGKKKKHHHHKKRKKKTREESSNSESDLDSECMRDKPRGSDTNREREAATLNLEDITSNVATNRFVWLEDIQALTAETFRTDKKPDPANWEYKSLYRGDIARYKRKGDSCLGIDLKKQCITWESSIVEKKQSPNRPERYFTKNSVKLLTTDGIPVYSKSQTSFGSSTFIPVSQLDSDAPTTTTCVNPLGIYDPLTTLWLQGKGPPEHETLKQQASQETSGNVNSILMAKVEEYNRMVRENPRDVHTWMEFVSFQDEIMRGPSPYAIKEGEQEIRRKSFKLILEKKLAILERAIESNPNDVDLKLAKLKLCTEFWEPSTLIKEWQKLVFLHPNNPLLWQKYLLFCQSQFSTFSVSKVHSLYGKCLSTLAAVQDGSMVSHPILPGTEEAMLAVFLQQCHFLRQAGHSEKAVSLFQALVDFTFFKPDSVKDLPTRGQVEFFEPFWDSGEPRFGEKGAKGWKSWMHQQEKGGWIIINKPDDEEEDGDEDQEIKDKTLPKWQIWLDIECSRETRHWLPWRPDKTKKQTEEDCEDPERQVLFDDLGPSLIRLSSPDLQFQLLYSFLQFLGVPCGCSLFPSNLYIAMDENNIFDNGQSERPLTSFDSLLSGVNSIGHMDTMTRGRQHIGHSKEGEEFIQNVFHLILPLFSGKEKSNLSVCWLQYEISKVGQCLQAKNKKKLKSQGKKSKKLAKNLLKASENRNNLSLWKLYAYLEWLLGNTEDARKVFDTALCLAGTEGMRNTQLCSLSLLYASLEVELLESLEETVMSRAVHILTKLAESGPYVPYPGHVLSVNILKARKAYEHALQDYLNESPVSNWDQVSSSNQLVSLVGCYALFQYLTVGIDAAVLICRHISEKLKGSASRKFEGIGENLGIHNFPTALEAVTLMHTNLLRYHMKVSIYPLNPLREALTEALKLYPSNQSLWRSYIQIQSKSHNASKARRFFDSVTRSAKSLEPWLFAIQAEEMRKKLVENVQRVDVGEIYSTIPETGLKNRIKTLFEHAIQSENGAHCPLLWRMYLNFLFSLGDKERSKGLFYKALQNCPWAKVLYMDAIEYFPDQLQETLDLMTEKELRVRVPIEELELLLED"
misc_feature 592..873 /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(592..618,625..630,640..645,649..651,655..699, 706..714,718..726,748..756,766..771,775..780,787..807, 832..843,850..873) /gene="NRDE2" /note="MTR4 binding site [polypeptide binding]; other site" /db_xref="CDD:412062" misc_feature 1054..2052 /gene="NRDE2" /note="necessary for RNA interference; Region: NRDE-2; pfam08424" /db_xref="CDD:429988" polyA_site 6179 /gene="NRDE2" /experiment="COORDINATES: polyA evidence [ECO:0006239]" ORIGIN
ttcccagcatgctagggcagcgagcagcgccatcttgcctcgttgtggtggccggggtctccttgggaagccagaggggaggaaggtgtggttcagcccatggctcttttcccggcctttgccggcgccgcagagcccggggagacgccagccagcggtagcgagggctccaggagagaattggactggcttagcaatccaagcttctccacagaagatgcactgaaactgcaccagcacactgcaaaggcttcagatcctgctcctaagagatcacaatttataaggagtccttcaaggtcagagctctcaggaggaagtgacaccaatgaagatctaaaaaaatcaactaagaaaaggaaagggaaaaagaaaaagcatcatcaccacaaaaaaagaaaaaagaaaaccagagaagaatcaagtaacagtgagtcagacttggacagtgagtgtatgagggataaacctagaggaagtgacacaaaccgtgaaagagaagcagcaacattgaatctagaagacattacatcaaatgttgccaccaatcgctttgtttggcttgaggatattcaggctttgacagcagaaaccttcagaacagacaagaaaccagaccctgcaaactgggaatacaagtcactgtatcgaggggacatagcaagatacaagcggaaaggtgactcatgccttggtattgacctaaagaaacaatgtataacttgggaaagttccattgtagaaaagaaacaatcccccaaccgacctgaacgctacttcacgaagaatagtgtgaaattattgaccacagatggaattccagtttacagtaaaagccaaacttcatttggttcaagcacttttataccagtttcacaactggacagtgatgctcctactacaacaacctgtgtgaatcctcttgggatttatgatccattgaccacactctggttgcaaggaaaaggtcccccagagcatgagactttaaagcagcaggcatcccaagagaccagtgggaatgttaactctattctaatggcaaaagtggaagaatataataggatggtcagagaaaatccaagagatgttcacacttggatggaatttgtttcttttcaggatgaaataatgagaggacctagcccttatgccatcaaagagggagagcaggaaataaggagaaaatcattcaagctaatcctagaaaagaaactggccattttagagagagctattgaaagcaacccaaatgatgttgatctgaaacttgccaagctgaagctttgtacagaattctgggaaccatcaactttgatcaaagaatggcagaagctggtttttctgcatcccaataatccactgctgtggcagaaatatctcttattttgtcaaagtcagttcagcaccttttcagtttcaaaagtccatagtttatatggaaaatgtttgagcactttggcagctgtacaggatggcagcatggtatcacatcctatactacctggcacagaggaagctatgttagctgtctttcttcagcagtgccattttcttagacaggcgggccattctgagaaagctgtgtctttgttccaagccctggttgatttcaccttctttaaacctgacagcgtaaaagatctgccaacaagaggacaggtagagttctttgaaccattttgggatagtggagagcctcggtttggagaaaaaggagcaaaaggctggaaatcatggatgcatcaacaagaaaagggaggctggattatcatcaataaacctgatgatgaggaggaagatggagatgaagatcaagaaataaaggataaaactctacccaaatggcaaatttggctggacattgaatgttcccgtgaaacaaggcattggctgccttggcgacctgacaaaactaaaaagcagactgaagaagattgtgaagatccggagagacaggtattgtttgatgatcttgggccatctttaatcagactttctagtccagatcttcagtttcagctgctgtactcatttctgcaattcttgggagttccatgtgggtgtagtctctttccttcaaatctctatatcgcaatggatgagaacaacatctttgacaatgggcagtctgaaaggccgctgacttcttttgactcgctgctttctggagtcaatagtattggccatatggacacaatgaccagagggagacagcacataggacacagtaaggaaggagaggagttcatacagaatgtctttcatttaatattgccattattttcaggaaaggaaaagtcaaacctttctgtctgttggctacaatatgaaatctcaaaggttggtcaatgtctccaagcaaaaaacaagaagaaactgaagtcacagggaaagaaaagcaaaaaactagccaagaatctccttaaggcatctgaaaaccgaaacaacctttccctctggaaactgtatgcctacttggaatggttacttggcaacacagaagatgctagaaaagtatttgatacagctctttgcttggcaggaactgaaggaatgagaaatacccaactctgtagtctgagcctgctttatgcttcactggaagtggagctactagagagtctggaggaaactgttatgtcacgtgctgtacatatattgaccaaactggctgaaagtgggccatatgtaccttatcctgggcacgtgttatctgtgaatatcttgaaagctcggaaggcatatgagcatgcgttgcaagattatttaaatgaaagtccagtctctaattgggatcaggtcagcagttctaaccaactggttagtttagttggttgttatgcacttttccagtatttgactgttgggattgatgctgctgtattaatatgtagacatatttctgaaaagcttaaaggttctgcttcacggaagtttgaaggtattggagaaaatcttggcattcataatttccccactgctcttgaagcagtcacactcatgcacacaaatttactcaggtaccatatgaaagttagcatttaccctttaaatccactgcgagaggcactaacggaagctttgaagctgtatcctagcaaccagtctctttggaggtcatatatccagatccaaagcaagtctcacaatgctagcaaagcacgaagattttttgatagtgtcacaaggtctgctaagtccctagagccgtggctgtttgcaatccaagcagaggagatgagaaagaagcttgttgagaatgttcagagagtagatgttggagaaatatattcaacaattcctgaaactggattaaaaaatcggatcaaaactttatttgaacacgcaattcagagtgaaaacggtgcccattgtccgttgttgtggagaatgtatttgaattttctgttttctctaggagataaagaaaggagcaaaggactgttttataaagcccttcagaactgtccctgggcaaaggtgctgtatatggatgcaatagagtattttccagatcaactgcaagagaccctagatctaatgactgaaaaagaattgagagtaagggtacctatagaagaactggaattgctactggaagattaaaagaagatggtgcaagaacaaacaagaaaaagaaaaaacaaacaaaaaagggaattttgatgtccaaaagaccaactataatggtcttcaaccattatctctgactgggacttcaacggactatgcacatacttttcttactaagaataatttgttaaaaactttgctattactgtgccacaccactagctgtaaataccctagaatttgttccacatcttgtagtgggctgctttacacatgtaaatacatctgtttttctggaaagtgcagcgaaatccacaaaatgatacttaccgttaattaatttgctgttggaccccatctacaactcgtatgctacagtttaatacagccattcccttgaattcagtggaatgtcaagacatgcctactacaatttgctaggcagcacaggaagtaaacatctgccaaatgtaccctttacaatctgctgctgtcaacaggctaaatatgtcctgcttggtgtggatgtatatataaatatccacgtatgttccagtatcttgctttctgtacaaaacaagaagataagtaaaactcttgaaaaaatatccaagcaacaattagctcaattgataaactgttaacttgtcaaacaagttttggcttttatcagctttgtctttgcatgtgtacatgatatgacaattctaatgtaaatatttatgaaaaacatacttaaatattttaatttcattggaacttggattttttattttttaaatgttaattttggtgaggaaaatgtatacatctttatttttaatacctagattttttctagcagtaagtttttgttttgttttaaatacgcaagctattataattaacttccctgtactcccaacatacattgggtaattgtcatgagagaaagaaaatggtaattctgttttgaggtgccgcttgctaaggtgactgctcaggatattagactgtttatagcaactctgtactttacaggctagtcgacactgatataagatggaatatggcaactgtttaacagtgtatagcatattttttccacttcccattataaacaaatgtgtaatgttactatgttcagacgaaaataaatagggaatttacttatatagaaagtgctaaaatatgaacaagacactggatttcacacccttgttgttgagactgcaaatgatgaggatctgagttttcatctgtgaaagaaactacctccaacagcagagccctttaatatcatatggggtattggttttgtatcgactctgaaggaagagtgcgagctactcaatcacttatacttatctctgccgcaatgagatacaccatggagggctcctgtccagcccaaccctggtcagctgatgagatctgttagcattgcagcacagactaagtccattttagtttgcattgtaattcatttatccatgttgtgaacgtattttgaatagagatggggatgtgcaaatgtttgaccatgttcttaaattttataatacttctgtagcaacttttactgaagatcttaaattgctttacttagtaaatttagcctcatattatcactctgattaagtgcaagtatggccacatttttgtttcaaaattaatggattcagtgctatttttctttttaaaaaatccattacttctaaaaccccagtttcatgtgagtctgagagatggcaggaacactcaaattagagctagcagcttgttactgggtggtgggtgaagaaagagaggtcagactctaacttttctgtttctttggtggatcaaaaattgagtcactcattctctgttcccctttgagatgtggccaatggtaggggtgtggaagaggatctggcatgcctagagtctgcccacccttggaggtctgtttctgctttgctacattgctttgctttttctcccatgggatggggaagttcctggagctcctgctctatattattctccgcctctctccctacattcatcctcttgctcacacttgtccattttctcgccttctagctcactttaccctgctcctcctctcccagcactagagctagaacgtttgtgatttcatgggtctcatttctcatgcataagagcaagtcattgactccactccaccctctgagaagtgtaagtgtaagcaggttgggggtggtgggtgcaagcccatttccccagacccttttctccgcacctgaagactaagagcagcaacaatggctggctggcccccagttccatgaacttactgtacagtgctgtatgcagatgtaattgccattccttattcttacatgatatttctcctgcttatgtatctgtgttagccctcttaaccacagctttaacctggtagcttatgttcagttggttgtgcaccatgaccctaaatctatttgagtcactgctttccaagatacagttcctcattgtgtaagtgtgacctacattctgtgttcttggcagtttggctgtattaaaacacatgttcaagtgagcccagcttattttgtgatccagattgctttataaaactcacctggccttca
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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.
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