2024-03-28 20:28:58, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_005933873 4430 bp mRNA linear VRT 02-JUL-2021 DEFINITION PREDICTED: Haplochromis burtoni NRDE-2, necessary for RNA interference, domain containing (nrde2), mRNA. ACCESSION XM_005933873 VERSION XM_005933873.3 DBLINK BioProject: PRJNA737037 KEYWORDS RefSeq. SOURCE Haplochromis burtoni (Burton's mouthbrooder) ORGANISM Haplochromis burtoni Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Neoteleostei; Acanthomorphata; Ovalentaria; Cichlomorphae; Cichliformes; Cichlidae; African cichlids; Pseudocrenilabrinae; Haplochromini; Haplochromis. COMMENT MODEL REFSEQ: This record is predicted by automated computational analysis. This record is derived from a genomic sequence (NW_024582535.1) annotated using gene prediction method: Gnomon, supported by EST evidence. Also see: Documentation of NCBI's Annotation Process On Jul 2, 2021 this sequence version replaced XM_005933873.2. ##Genome-Annotation-Data-START## Annotation Provider :: NCBI Annotation Status :: Full annotation Annotation Name :: Haplochromis burtoni Annotation Release 102 Annotation Version :: 102 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 9.0 Annotation Method :: Best-placed RefSeq; Gnomon Features Annotated :: Gene; mRNA; CDS; ncRNA ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..4430 /organism="Haplochromis burtoni" /mol_type="mRNA" /strain="Fernald_Lab_line" /db_xref="taxon:8153" /chromosome="Unknown" /sex="female" /tissue_type="blood" gene 1..4430 /gene="nrde2" /note="Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 EST, 2 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 71 samples with support for all annotated introns" /db_xref="GeneID:102292501" CDS 47..3607 /gene="nrde2" /codon_start=1 /product="nuclear exosome regulator NRDE2" /protein_id="XP_005933935.1" /db_xref="GeneID:102292501" /translation="
MALFPAFAEEASNKVRDSSTEFDWLKNKSFQTGDALSLHGRFLEKTSEEQNKKEPSVSRDVSSEEDGEDGVAPRKKKRKKKQKKKHKKKSGRYSHSSASDSETIYPSDLKKEQEAKRQEAPQLASHFSWLDDLQLPTEQLFCVDRKADPANWTYKSLYRGDVARYRRKGSSALGLDFHKQGVSWEDSEATNKKKKKGGDGKKAADRYYSTVSRQLLKAAPALPALPASSDGSDGTSSAIFLPLCDDEADNKEGEKAHIGQTSSVNPLGVYDSSTALWLQGKGQQDQQKEDTHTEEGTALLGGRTEDFNRRLREQPADTQLWIEFIRYQDEASAAVFKGEEEQQGSDAAERRKSSYRAVLEKKLSIAERAVATNPLCIALQLERLRICQELWEPSALAKEWKKLVFLHPNSTPLWREYLLFTQSYFSSFTVSKVNAAYGKCLSTLSAVRDGSMVSHPALPGIEEDMLDILTQQCHFLRQCGHSEKSTAMFQAMIDFTFFKPDSVRELSTKQQVDFFEPFWDSGEARVGELDARGWKAWMLQQERGGWLQPTAEEEEEEEEDEEEVKDRTQPRGTIWLDVESSREATDWLPWRPDKAKGQSEEDCEDPDRQVLFDDIGPSLICLSSPELRLRLLLRFLSFLGLPVDSVLSVSPGQPGLLLENLSLLTQGNAPQRPLTSYDLADGGINSVGHMTTLQGTRKWVGLGKQGEKFLTNLFNMLQPVLPPHHRAFLSLSWIQYEKLKVMRCLHGGNKKRLRSQGKSSKRVAKRLLKEPDNRSSLVLWREYGHLEWLLGNLDEARKVFSTATALGGTKGLSSRTLCDLCLLWSQLELEDGAKERGGQPADVTASPAVSVLTRLAEGTSASSTSSSLSTVSILKARKSYDQTLAASLSALDQNSKVQDDLMAEKLRLRGLVGCYALFQYLTVSVQAANAVYTQVREKMEELHRTLTAEQQLNSSKEGKLARADADSNRPCVSRVAAECEALAWQQAALLKYHNTVAVFPLVTLRQTLTSALPVWTTSVPLWSIYVQVENRYHSAGRARRFFHSVTRNCSSVVPRLFAIVAEQQRKQLVDAAQGSCLHDDPLSILPENGLSNRIRGLFENAIATETGAHCPLLWRMYIYFLVCEGKVDKATGIFYKALQNIPWCKGLYMDAAQLFPDHLQEFVDLLTEKELRVRLPLEELDILLED"
misc_feature 467..781 /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(467..490,497..502,512..517,521..523,527..571, 578..586,590..598,617..619,641..646,656..661,665..670, 677..697,722..733,752..781) /gene="nrde2" /note="MTR4 binding site [polypeptide binding]; other site" /db_xref="CDD:412062" misc_feature 965..1924 /gene="nrde2" /note="necessary for RNA interference; Region: NRDE-2; pfam08424" /db_xref="CDD:429988" polyA_site 4430 /gene="nrde2" /experiment="COORDINATES: polyA evidence [ECO:0006239]" ORIGIN
ttgtgacgtcatatccctgcgccctgtttctaagtgacgcagcatcatggcgctgtttccagcgtttgcagaagaggcgagcaacaaagttagagattcttccacagagtttgattggctgaagaataagagttttcagacaggagatgcgctctctcttcacggtcgatttctagagaagaccagcgaggagcaaaacaagaaggaaccaagtgtcagcagagatgtcagctctgaagaggacggagaggatggtgtggcacccagaaagaagaaaaggaagaagaaacagaagaaaaagcacaaaaaaaagagcgggaggtattcgcacagcagcgcatctgactctgaaaccatctacccgagtgatctcaaaaaggagcaagaagccaaaaggcaggaggctcctcagttagccagccatttctcttggttggatgacctccagttgcccacagagcagctgttttgcgtggaccgaaaagcagaccccgccaactggacttacaagtctctgtacagaggagacgtagccaggtatagaaggaaaggcagctcggctctgggtttggactttcacaagcagggggtcagctgggaggactcagaggcgactaataagaagaagaagaaaggcggcgacgggaagaaggcagcggacagatactactctacagtcagtcgacagctgctgaaggcagcgcctgctcttcctgcattaccagcgagttctgatggtagcgatggcaccagttctgcaatcttcctccctctgtgtgatgatgaggcagacaataaagaaggagagaaagctcacatagggcagacgtcatcggtgaatcccctcggtgtatatgactcctcgacggccctctggctgcaggggaaaggacagcaagaccagcaaaaggaggacactcacacagaggagggcactgcacttttgggtggcaggaccgaagatttcaacaggcggctgagagagcagccagcagacacacagctgtggatagagttcatacgatatcaggatgaggcgagtgcagctgtgttcaaaggcgaggaggagcagcagggcagtgatgctgctgagcgccgcaagtcttcctacagggcagtgctggagaaaaagctaagcattgcagagcgcgccgtggccaccaaccccctctgcatagctctgcaactcgagagacttcgcatctgccaggagctctgggaaccctcggctctggctaaagagtggaagaaactggtgtttctccacccaaacagcacccccctgtggagggagtatctgctcttcacccagagctatttcagcagcttcactgtgtccaaggtcaacgctgcgtacggcaagtgtctgagcacgctcagtgctgtccgagacggcagcatggtgtctcacccggcactgccaggaatagaggaggatatgttggatatcctcacgcagcagtgtcactttctgcgtcagtgtggtcattcggagaagtcgactgccatgtttcaggcaatgattgactttactttcttcaagcctgacagcgtgcgagagctgtccactaagcagcaggtcgacttctttgagccgttctgggacagcggcgaagcaagggtcggggagctggacgccagaggctggaaagcctggatgctccaacaagagcgaggaggttggctacaacccactgcagaagaggaggaagaagaggaagaggatgaagaggaggtgaaggacaggacccagcccagaggtaccatctggctggatgtggagtcatctcgtgaagccacagactggttgccctggagacccgacaaagccaagggccagtcagaggaggactgtgaggatcctgacagacaggtgttgtttgatgacattggcccgtcactgatttgtttgtcttcgccagagctccgtctccgcctgcttctccgtttcttgagctttttgggtttgcctgtggactcagtgctctcggtttccccaggtcagcctggcttgctgctggagaacctttctctgctcactcaaggtaatgctccccagcgtcctctgacctcctatgatttagctgatggtggcattaactctgtcggtcacatgaccactctccaaggaacacggaagtgggtggggcttgggaaacagggtgagaagttcctcacgaacttgttcaatatgcttcagcctgtgcttccgccccaccaccgagccttcctgtcactcagctggatccagtacgagaaactcaaggtcatgcgctgcttgcacggcggaaataaaaagcgccttcgttctcaggggaagagcagcaagcgagttgccaagcggctgctcaaagaaccagacaatcgctcatcattagtgttgtggcgggagtacggccacctggaatggctactgggcaacctggatgaggcccgcaaagtgttctccactgcaacagcgcttgggggaaccaaagggctgagcagtcgcactctgtgtgatctctgcctgttgtggtcccagctggagttggaagatggagcgaaagagcgagggggtcaaccggctgatgtaacagcatccccggctgtgtctgtactgacccggctagcagaaggaacctctgcatcgtccacttcatcctccctctccacggtttccatcctgaaagccagaaaatcgtacgaccagactctggctgccagtttatcagcactggaccaaaacagtaaagtccaagacgacctgatggcagagaagctgaggttgagaggtctggttggctgctacgctcttttccagtacctcacggtgagcgtgcaagcagccaacgcagtctacacccaggttagagagaagatggaggaactacaccgcacgttaacagctgaacagcagctgaacagcagcaaggagggtaagctcgcaagagctgacgctgactcaaacaggccctgtgtcagcagagtagctgctgagtgtgaggcgttggcctggcagcaggcggcactgctcaagtaccacaacaccgtcgctgtgtttcctctggtgacactgaggcaaacgctgacatcggccctcccagtctggaccaccagcgtccctctctggagcatttatgtacaggtggagaaccgttaccatagcgctggccgtgcacgccggttttttcactctgtaaccagaaactgcagcagcgtggtgccgcgtctctttgccattgttgctgaacagcaaaggaagcagctggtagatgcagctcagggatcgtgtttacatgatgatcccttatccatcctgccggagaatggcctcagcaaccgcatccgtggactgtttgaaaacgccatagcaacagaaactggggctcattgtcctttactttggagaatgtacatctacttcctggtgtgtgaaggaaaagtggataaagccacaggaatcttctacaaggccttacagaatatcccctggtgtaagggtttgtatatggacgcagcgcagctgttccccgatcacctgcaggagtttgtagacctgttgacagagaaagaactgcgagtgcgactgcctttagaagaattggacatactgctggaagactgagcacacacacacaatcttaattcaagtgtgtgttcaaattgtcaaatttgatgggaagaaaaggacaagcacaaaggcaaactcgacacatatacagctgcagtaatttgagaaaagagctgggttttgtttgtttgttttttttgtataaagtgacacaaaatgctttaattgccacaacaaaccactaaaactgtatttcttttacttgatattgtcaataaatacaagattgatctatgtgacatgccttaataaaacatgtaaaatttataccggaagttgttacattccaacttattaagaaaaactctgtggaagtgagaaaggaaaacgctgccactcagcatattaccatgttgccacctcttaaagagtttttaatatttttttttaatcataataaatcaagtaaggattatattttattttctttgtaaacaaacatctactggactgcggagtaaatggggacaaacttgcaggataaaaaaaagacgaactctgctgtgtttccgagtaaccgtattatggagagaaaaagagcaacaaaattcaaagtgcggccgacatgaccgcagccgaacacgtgagagctcactggatcagtttctcattgattcacaagtccaaatgtttaggaagacatctctctttttatgtattctcctttgaacttgtacagtagcttaactcaattattatgcatacaattcttttgtaaatacaacaccattattgtggtactgtttaattccattttgtattgtactgatgtttaagtaaaggtttgagaaaaaaaaacagtttctcattgacagaa
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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.
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