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LOCUS XM_017139714 5133 bp mRNA linear INV 09-DEC-2024 ACCESSION XM_017139714 VERSION XM_017139714.3 DBLINK BioProject: PRJNA1194641 KEYWORDS RefSeq. SOURCE Drosophila takahashii ORGANISM Drosophila takahashii Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora. COMMENT MODEL REFSEQ: This record is predicted by automated computational analysis. This record is derived from a genomic sequence (NC_091683) annotated using gene prediction method: Gnomon. Also see: Documentation of NCBI's Annotation Process On Dec 9, 2024 this sequence version replaced XM_017139714.2. ##Genome-Annotation-Data-START## Annotation Provider :: NCBI RefSeq Annotation Status :: Full annotation Annotation Name :: GCF_030179915.1-RS_2024_12 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 10.3 Annotation Method :: Gnomon; cmsearch; tRNAscan-SE Features Annotated :: Gene; mRNA; CDS; ncRNA Annotation Date :: 12/07/2024 ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..5133 /organism="Drosophila takahashii" /mol_type="mRNA" /strain="IR98-3 E-12201" /db_xref="taxon:29030" /chromosome="X" /sex="female" /tissue_type="Whole fly" /dev_stage="Adult fly" /collected_by="Originally obtained from EHIME-Fly" gene 1..5133 /gene="Upf1" /note="Upf1 RNA helicase; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein" /db_xref="GeneID:108056075" CDS 313..3846 /gene="Upf1" /codon_start=1 /product="regulator of nonsense transcripts 1 homolog" /protein_id="XP_016995203.2" /db_xref="GeneID:108056075" /translation="MSVDTYAPSSALSFLDMDDNELLPGADTQPTQYDYRDFTMPSTS QSQTQNDQLELQPRRTDPSSSSVHPRLASITNDLADLQFEEEDDEAGGSYVKELPPHA CKYCGIHDPATVVMCNNCRKWFCNGRGSTSGSHIINHLVRAKHREVTLHGEGPLGETI LECYSCGVRNVFVLGFIPAKADSVVVLLCRQPCAAQNSLKDMNWDQEQWKPLIADRCF LPWLVKQPSEQGQLRARQISAAQINKLEELWKDNIEATFQDLEKPGIDSEPAQVLLRY EDGYQYEKTFGPLVRLEADYDKKLKESATQENIEVRWDVGLNKKTIAYFTLAKTDSDM KLMHGDELRLRYVGEMYNPWSEIGHVIKVPDNFGDDVGLELKTSSNAPVKCTGNFSVD FIWKCTSFDRMTRALRNFAMDRNSVSNYIYSRLLGHGRPDANDEVLFRGPQPKLYSAP HLPDLNRSQVYAVKHALQRPLSLIQGPPGTGKTVTSATIVYQLVKQHGGTVLVCAPSN TAVDQLTEKIHRTNLKVVRVCAKSREAIDSPVSFLALHNQIRNMETNSELKKLQQLKD ETGELSSADEKRYRSLKRGTENQLLEAADVICCTCVGAGDGRLSRIKFTSILIDESMQ STEPECMVPVVLGAKQLILVGDHCQLGPVVMCKKAARAGLSQSLFERLVVLGIRPFRL EVQYRMHPELSQFPSNFFYEGSLQNGVCAEDRRLKLDFPWPQPERPMFFLVTQGQEEI AGSGTSFLNRTEAANVEKITTRFLKAGIKPEQIGIITPYEGQRAYLVQYMQYQGSLHS RLYQEIEIASVDAFQGREKDIIIMSCVRSNERQGIGFLNDPRRLNVALTRAKYGIIIV GNPKVLAKQQLWNHLLNFYKDRKVLVEGSLNNLKESLIHFQKPKKLVNSMNIGAHFMS TMMADAKEVMVPGSIYDRSGGYGGQGRQMHQNQAMNGGPYGGAPLGYGVPSAANSMMG GNNNFGGGGTAGGGGGNGPSWAAAHLHHDSIGYISNEHGAAALGNMPVPVGMFMNMSN LPPRFYNQHQQAIMAAKQNRAMQQQQSGNFSPGLAITGGAAGALAGNNKKSQKTVGKS RAIGAAEARGAAAGGGGAGQANSTAGTPFSQQPAPLSLQMTQPSGFALSQQPELSQDF GQISQMDGLLSQDVAFNVSGERSLNQFSQPY" misc_feature 613..1068 /gene="Upf1" /note="RNA helicase (UPF2 interacting domain); Region: UPF1_Zn_bind; pfam09416" /db_xref="CDD:401391" misc_feature 1225..1491 /gene="Upf1" /note="1B domain of eukaryotic UPF1 RNA helicase and related proteins; Region: 1B_UPF1-like; cd21407" /db_xref="CDD:394815" misc_feature order(1327..1335,1387..1389) /gene="Upf1" /note="nucleic acid substrate binding site [nucleotide binding]; other site" /db_xref="CDD:394815" misc_feature 1384..2961 /gene="Upf1" /note="DNA helicase, putative; Region: TIGR00376" /db_xref="CDD:273041" misc_feature 1672..2373 /gene="Upf1" /note="DEXXQ-box helicase domain of UPF1; Region: DEXXQc_UPF1; cd18039" /db_xref="CDD:350797" misc_feature order(1672..1680,1687..1689,1744..1764,2257..2259, 2368..2373) /gene="Upf1" /note="ATP binding site [chemical binding]; other site" /db_xref="CDD:350797" misc_feature order(1828..1836,1900..1911,2062..2064,2110..2112, 2116..2118,2269..2271,2275..2277) /gene="Upf1" /note="RNA binding site [nucleotide binding]; other site" /db_xref="CDD:350797" polyA_site 5133 /gene="Upf1" /experiment="COORDINATES: polyA evidence [ECO:0006239]" ORIGIN 1 acactgcggc aggccgggca aattttgttg aaacaagcga gaattgctca cttttttcga 61 tcctacgtgc gtttcccgaa cgtggaacgc tcaaaaccaa acgattcaca gcacacaaga 121 gccgcgctag cgaaaaagcg gcttctgcat tggctggcca cgcgaggaaa gcgccaaaac 181 gttagtgtca taccatctac ataccataat cattgcggcc acgctcctcc gccaggtgaa 241 ttgggaatcg tgtgctcctc gcggggattg cagctcaaga ttaacaggat tcggtgaggc 301 acattcggcg ccatgagcgt ggacacgtac gcgcccagct cggcgctctc ctttttggac 361 atggatgaca acgagctgct gcccggagcg gatacgcagc ccacgcagta cgactaccgg 421 gatttcacca tgccctccac atcgcagagc cagacgcaga acgatcagct ggagctgcag 481 ccccgtcgca ccgatccctc ttcctcgtcg gtgcatcccc gtttggccag catcaccaat 541 gacctcgctg acctgcagtt cgaggaggag gacgacgagg cgggaggttc gtatgtcaag 601 gagctgccgc cgcatgcctg caaatactgc ggcatccatg atcccgccac cgtggtcatg 661 tgcaacaatt gccgcaaatg gttctgcaat ggccgcggca gcacctccgg ttcgcacatc 721 atcaatcatc tggtgcgggc caagcatcgc gaggtgacgc tccatggcga aggcccactg 781 ggcgagacca tactcgaatg ctactcgtgt ggcgtgagga acgtgttcgt cctgggtttc 841 atacccgcca aggcggattc cgtggtggtc ttgctctgcc ggcagccctg cgccgcccag 901 aactcgctga aggacatgaa ctgggatcag gagcagtgga agccactgat tgctgatcgc 961 tgtttcctcc cctggctggt caagcagccc agcgagcagg gacagctgag ggcgcgacag 1021 atttccgccg cccagatcaa caagctggag gagctgtgga aggacaatat cgaggcaacg 1081 ttccaggatc tcgagaagcc tggaatcgat tcggagccgg cgcaagtgct gctgcgctac 1141 gaggatggct atcagtacga gaagaccttt ggaccgctcg tacgcctgga ggcggactac 1201 gacaagaagc tgaaggagtc ggccacgcag gagaatatcg aagtgcgctg ggatgtgggg 1261 ctgaacaaga agaccattgc ctactttacg ctggccaaaa cggactcgga tatgaagcta 1321 atgcatggcg atgagctgcg tttgcgctat gtgggcgaaa tgtacaatcc ttggtcggaa 1381 attggccatg tgatcaaggt gccggataat tttggcgatg atgtgggtct cgaactaaag 1441 acctcctcga atgctcccgt taaatgcact ggaaacttct ccgtggattt catttggaag 1501 tgcacctcct tcgatcgcat gactcgtgct ctccgcaact ttgccatgga tcgcaactcg 1561 gtatcgaact acatctactc gcggcttttg ggccatggac gtcccgatgc caacgacgag 1621 gtgctcttcc gtggaccgca gcctaagttg tatagcgccc cccatctgcc tgaccttaat 1681 cgcagtcagg tttatgcggt gaagcatgcg ctgcagcgac ctctctcgct tatccaagga 1741 cctccgggca ctggaaagac cgtaacgtct gctactattg tttaccagct ggtaaagcag 1801 catggcggca ctgtcttggt ttgcgcaccc agcaatacag ccgttgatca gttgaccgag 1861 aagattcacc gcaccaatct gaaagtagtg cgcgtttgcg ccaagagtcg cgaggccatc 1921 gacagtccgg tgagcttcct ggcgctgcac aatcaaatcc gcaacatgga gaccaattcg 1981 gagttgaaga agctgcagca gctgaaggac gagaccggcg agctgagctc ggcggatgag 2041 aagcgctatc ggagcttgaa gcgcggcacg gagaaccaac tgctcgaggc agctgatgtt 2101 atttgttgca cttgcgtggg agccggcgat ggtcgcttgt cgaggattaa gttcacctcg 2161 atactgatag atgaatccat gcaatcgacg gagccggaat gcatggtgcc cgtggtgctg 2221 ggcgccaagc agctgatcct cgtcggcgat cactgtcaac tgggaccggt ggtcatgtgc 2281 aagaaggccg cgcgtgctgg cctctcgcag agtctgtttg aacgcctggt tgtgctgggc 2341 atccgtccgt ttcgtttgga ggtgcagtat cgcatgcatc cggagctctc acagttcccg 2401 tccaacttct tctacgaggg ctcgctgcag aatggcgtgt gtgccgagga tcgccgcctc 2461 aagctcgact ttccatggcc gcagcccgag cgacccatgt tctttttggt cactcaggga 2521 caggaggaga ttgcgggctc aggaacctca ttcctcaacc gtacggaggc agccaatgtg 2581 gagaagatca cgacgcgttt cctgaaagcg ggcatcaagc cggaacagat tggcattatc 2641 acaccctatg agggtcagcg ggcgtactta gtgcaatata tgcagtacca gggcagcctg 2701 cactctcgcc tttaccagga gatcgaaata gccagcgtgg acgcgttcca gggtcgcgaa 2761 aaggacatta tcatcatgtc ctgcgtgcgc tccaatgagc ggcagggcat cggcttcctc 2821 aacgatccaa ggcgtttaaa tgtggcttta acgcgtgcga aatacggcat cattatcgtg 2881 ggcaatccca aggtgctggc caagcagcag ctgtggaatc acctgctcaa cttctacaag 2941 gatcgcaagg ttttggtcga gggctcttta aacaacctca aagagtcgct cattcacttc 3001 cagaagccca agaagctggt gaacagcatg aacattggtg cgcacttcat gtccaccatg 3061 atggccgatg ccaaggaggt aatggtgccc gggtccatct acgatcgcag cggtggctac 3121 ggcggacagg gtcgtcagat gcatcagaat caggcgatga atggtgggcc gtatggagga 3181 gctcccctgg gatacggcgt tccaagtgcc gccaactcaa tgatgggcgg taataacaac 3241 tttggaggag gaggaactgc cggcggtgga ggaggtaatg gacccagctg ggcagccgcc 3301 cacctgcatc acgactccat tggctacata tccaacgagc acggagcagc tgccctgggc 3361 aacatgcccg ttccagtggg catgttcatg aacatgagca acctgccgcc gcggttctac 3421 aatcaacacc agcaggcgat tatggcggcc aagcagaata gggccatgca gcagcagcag 3481 tcgggtaatt tctcgccggg attagcaatc actggaggag ctgcaggcgc cttggctgga 3541 aataataaga aatcccagaa gacagtgggt aaatcgcgtg ccattggagc agcggaggca 3601 agaggagctg cagctggagg aggaggagct ggacaggcaa acagcacagc gggcactccg 3661 ttcagccagc agcctgctcc tttgtcgctg cagatgacgc agcccagcgg ctttgctctc 3721 tcccagcagc cggaactttc gcaggacttt gggcaaatct cacagatgga cggtttgctc 3781 tcgcaggatg tggcctttaa tgtgtcgggc gaacgcagtt tgaatcagtt ctcgcagcct 3841 tattgagaat ccggccggag gtgcagcaac tacaaacgat aaacagaaga agcaaaccca 3901 aacgaaacaa caaacaacaa gaaactcaac tttgaagtca tcatcaagga gtagcatcag 3961 taggcggcag gcaggaaccg agcgaagagg actatcacgg gaacaacgac agatgcggga 4021 acaaatgcga caatgcgacc taggaacatg agcacatgag cgggatatta aattgagatg 4081 gaaatggaaa tgaagataga gaaggtggta acgagatgag gagtgtattt tagagagaag 4141 aggagaggca ctgctgcagc cactgaggca ccgaagcaga tgttcccgaa acgccgcggg 4201 ccacgaatgg ccactggcca tcacgagtgc gctccaaaga gaggagctca tccgtcagga 4261 gatggatgga tgggccacga cgatggacaa acttctcgac acgattcccc ttttgaactt 4321 gccaacgcag gactcgcaac caggagagcc tgagccttag gcgcgcaatg aacgcaatga 4381 actcccgcaa aggagacacg tattcaccaa gtggcttacc ttccaaaaac cttcttgtgg 4441 cctccagtgc agcagccaat ctttagctcc tgctcgaaac cttctttccc acttaaccga 4501 aaccgaaaca gaaactgaaa ccaaatcaaa acagaaacac aaacggttca ctcacaccga 4561 tttccccacc atattgccgt aaatgttgta aatttcgtac attttttgga ctcttttttt 4621 cgatttctgt atgcatttgt taatcgctaa caaacaaaaa cacacacacc caaaaaaaaa 4681 acaagaaaaa acgtataaaa tcaggacgaa agaaaatcaa attcaaaaga tatgaataaa 4741 caattttaaa tcgcacggga acgctggcgg atcccccaaa aagcggatgc aaatttccag 4801 cgcagattgg aaaccggaaa atcgcttcgc gatcttccaa cccaaataaa aaaaatcgcc 4861 catttacaca ataattaaca tgcccaaccg aaaagaaatg tgaagggtca acgatcagaa 4921 aaaaaaggtt aatattttaa aataatatta atgcagttac agatgcctgt taattgtttt 4981 taaaacgata tgaaaatggt atattttttc tatatattgt gagttatttc ttccccacgc 5041 gactctttga ttcaagaaaa tgaaacattt tttgtttttg gaaattctaa ataaagaatt 5101 taagttttcc cttgcgagaa acaaataagg aaa