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LOCUS XM_017139200 4581 bp mRNA linear INV 09-DEC-2024 mediated mRNA decay (Upf2), transcript variant X2, mRNA. ACCESSION XM_017139200 VERSION XM_017139200.3 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_017139200.2. ##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..4581 /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..4581 /gene="Upf2" /note="UPF2 regulator of nonsense mediated mRNA decay; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein" /db_xref="GeneID:108055737" CDS 228..3887 /gene="Upf2" /codon_start=1 /product="regulator of nonsense transcripts 2" /protein_id="XP_016994689.2" /db_xref="GeneID:108055737" /translation="MLASDSVSPAALEAEVATQPESGKDQADDVDDNDDTDADADPDA DAEAEATALEAEEREELQQFINELSEKIEAKRQLRLQNSTFELPGEEYFARLDSNLKK NTAFVKKLKLFTATQLEGLLRELSALNLSKYISEICAALAEAKLKMTDVPAVVTLASR LHCTYADFDVQFLEAWQKALNIKASEKIANPSKPRVDLRLFAELVSSGVIQMKPGLAQ LGVVLVHLIAQDKDDHSNFSIILSFCRHCGEEYAGLVPQKMQQLAAKYGVEVPKSEFL GADKQLNLRTMLKGYFKALCKHVLAEQAELMNMTKNIRRTMECKGEISTEKREKCELM QAGFDKLLASAQSLSELLGEPLPELAKESECCNPGTVIDNMLDSAAFGLLDPWGDEET RSFYTDLPDLRQFLPNFSAPKVDLETLEEPSELTEEAIEANLDAEMDLDDPPSTNSDT ALENASEEQPTTPVVPAEDVKPQKMGSALMELGRQQSQTLAQNPSQTQTQMRQQFDGF LVNLFNCVNKELIDSAAIEFLLNFNTKHQRKKLTRTIFSVQRTRLDILPYLSRFVAIV HLCNTDVATDLAELLRKEFKWHIRKKNQLNIESKLKIVRFIGELVKFGLFKKFDALGC LKMLLRDFQHHQIEMACAFVEVSGVYLYNCRDARLLMNVFLDQMLRLKTATAMDSRHS AQIESVYYLVKPPESSKREPTVRPPMHEYIRHLIFEELCKQNVERCIKMLRRIDWLDP ETNCYAIKCLSKAYLLRFPLVRCLADLVSGLSSYQPRAVTIVIDNVFEDIRAGLEIHS PRMAQRRIAMAKYLGEMYNYKLVESTHILNTLYSIISLGVSLDQSVVSPLDPPDSLFR LKLACMLLDTCGPYFTSQATRKKLDYFLVFFQHYYWFKKSHPVFSKSENSADLFPILV DHTYRDCLAGVRPKLKLYKSLEQAKAAIDQLQEKLYPQLRASSSAQDPSLATISEISE LDEGATDEDSGSSNDQRERQVAGQEPEPEQSNDWTENENDNEAEPPLPPPPPPEKSKE DLEFEHLYDKMTTDSYQERLKEPIKATAKDIPVPMMARLQKKSYEQITGSGSVNASQI SKADVAPGSPGAEMSEGNGKSAGGGGAGVAVPFVLMVRGNKGGKQQFKSFVAPSDSHL AINLKLQEQKIREEKEKVKRLTLNITERIEEEDYQESLLPPQQRNFTQSYYQKPSKHK FKHQKGAPDADLIFH" misc_feature 525..1115 /gene="Upf2" /note="Middle domain of eukaryotic initiation factor 4G (eIF4G); Region: MIF4G; smart00543" /db_xref="CDD:214713" misc_feature 1761..2312 /gene="Upf2" /note="Middle domain of eukaryotic initiation factor 4G (eIF4G); Region: MIF4G; smart00543" /db_xref="CDD:214713" misc_feature 2355..2933 /gene="Upf2" /note="Middle domain of eukaryotic initiation factor 4G (eIF4G); Region: MIF4G; smart00543" /db_xref="CDD:214713" misc_feature 3312..3737 /gene="Upf2" /note="Up-frameshift suppressor 2; Region: Upf2; pfam04050" /db_xref="CDD:461146" polyA_site 4581 /gene="Upf2" /experiment="COORDINATES: polyA evidence [ECO:0006239]" ORIGIN 1 gataacatgt agagataaaa aaattaaaaa caaaacctga agggaaaatc gtggcggaaa 61 aacgtgggaa aaacaaggaa atgcgaggcg actaacgaat tccgcggagc acaactattt 121 cacccggaca cttgccgcga cggagcatct cgagcagata gaatttcaaa acatagcaac 181 tgggattcga gtccagctga agggaatccc gtccagaaat tgccgccatg ctagctagcg 241 attccgtcag cccggccgct ctggaggcgg aggtggccac acagccggaa tctggcaaag 301 atcaggccga tgatgtggac gacaacgacg atacggatgc ggatgcagat ccggatgcag 361 atgcggaggc ggaggccaca gccttggagg ccgaggagcg cgaggagctg cagcagttca 421 tcaacgagct gagcgagaag atcgaggcca agcggcagct gcggctgcag aactccacgt 481 tcgagctgcc cggcgaggag tacttcgccc ggctggactc caatctcaag aagaacacgg 541 cgttcgtgaa gaagctgaag ctcttcaccg ccacccagct ggaggggctg ctgcgggagc 601 tctccgccct gaatctgagc aagtacatct ccgaaatatg cgccgccttg gcggaggcca 661 agctgaagat gaccgatgtg ccggcagtgg tcactctggc ctcccggctg cactgcacct 721 acgcggattt cgatgtccag tttctggagg cctggcagaa ggcgctgaac atcaaggcca 781 gcgagaagat agccaatccc agcaagccgc gcgtggatct gcgactcttt gccgaactgg 841 ttagctcggg agtgatccaa atgaagcccg ggctggccca actgggcgtg gtgctggtgc 901 acctgattgc ccaggacaag gacgaccaca gcaacttctc catcatcctc tccttctgcc 961 gccactgcgg cgaggagtac gccggcctgg tgccgcagaa gatgcagcag ttggccgcca 1021 aatacggcgt ggaggtgccc aagtccgagt tcctcggcgc cgacaagcag ctcaatctgc 1081 gcaccatgct caagggctac ttcaaggccc tgtgcaagca cgtcctggcc gagcaggcgg 1141 agctgatgaa catgaccaag aatatacgcc gcacgatgga gtgcaagggc gagatatcca 1201 cggagaagcg cgagaagtgc gagctcatgc aggcgggctt cgataagctg ctggcctcgg 1261 cccagtcgct ttccgagcta ctgggagaac ccctgcccga gctggcgaag gagtcggagt 1321 gctgcaatcc gggcacggtc attgacaaca tgctggacag cgccgccttc gggctgctcg 1381 atccctgggg cgacgaggag acgcgctcgt tctacaccga tcttccggat cttcggcagt 1441 ttctcccgaa tttctcggca cccaaggtgg atttggagac gctcgaggag cccagtgagc 1501 tcaccgagga ggccatcgag gcgaatctgg atgcggaaat ggatctggac gatccgccgt 1561 ccaccaactc ggacacggcg ctcgagaatg ccagcgagga gcagccaacg acgcccgttg 1621 tgcccgccga ggatgtgaag ccgcagaaaa tgggcagcgc gctgatggaa ctgggccgcc 1681 agcaaagcca gacgctagcc cagaatccca gccagacgca aacgcagatg cggcagcagt 1741 tcgacggctt tctggtgaac ctgttcaact gcgtgaacaa ggagctcatc gactcggcgg 1801 ccatcgagtt cctgctgaac ttcaacacga agcaccagcg caagaagctg acgcgcacga 1861 tattctcggt gcagcgcacg cggctggaca ttctgcccta tctgtcgcgc ttcgtggcca 1921 tcgtgcatct gtgcaacacg gacgtggcca ccgatctggc ggagctgctg cgcaaggagt 1981 tcaagtggca tatacgcaag aagaaccagc tgaatatcga gtccaagctg aagatcgtcc 2041 gcttcatcgg cgagcttgtg aagttcgggc tgttcaagaa gttcgatgct ctgggctgcc 2101 tgaagatgct gctgcgcgac ttccagcacc accagatcga gatggcctgc gcctttgtgg 2161 aggtgagcgg cgtctatctg tacaactgcc gcgacgcccg cctgctgatg aacgtcttcc 2221 tggaccagat gctgcgcctc aagacggcca cggccatgga ctcgcgtcac tcggcgcaga 2281 tcgagagcgt ctactatctg gtcaagccgc cggagtcctc gaagcgcgag cccaccgttc 2341 ggccgcccat gcacgagtac atccgccacc tgatcttcga ggagctgtgc aagcagaatg 2401 tggagcgttg catcaagatg ctgcgccgca tcgactggct ggatccggag accaattgct 2461 atgccatcaa gtgcctcagc aaggcgtatc tgctgcgctt tccgctcgtc cgctgcctgg 2521 ccgatctcgt ctcgggtttg agctcctatc agccgcgagc ggtgaccatt gtgatcgaca 2581 acgtgttcga ggacattcgc gccggactgg agatccattc gccgaggatg gcccagcggc 2641 gcattgcgat ggccaagtac ctgggcgaga tgtacaacta caagctggtc gagtccacgc 2701 acatcctcaa cacgctctac tcgatcatct cgctgggcgt gtcgctggac cagagcgtcg 2761 tctcgccgct ggatccgccg gacagcctgt tccggctgaa gctggcctgc atgctgctgg 2821 acacctgcgg accctacttc accagccagg ccacgcggaa aaaactggac tacttcctgg 2881 tcttcttcca gcactactac tggttcaaga agtcgcatcc ggtgttcagc aagtcggaga 2941 acagcgccga cctgttcccc atcctggtgg accacaccta ccgcgactgc ctggccggcg 3001 tgcggcccaa gctgaagctg tacaagagtc tggagcaggc gaaggcggcc atcgatcagc 3061 tgcaggagaa gctctatccg cagctgaggg ccagcagcag tgcccaggat ccctcgctgg 3121 ccaccatcag cgagatcagc gagctggacg agggcgccac cgacgaggac tcgggctcct 3181 cgaacgacca gcgggagcgg caggtggccg gccaggagcc ggagcccgag cagagcaacg 3241 attggaccga gaacgagaac gataacgaag cggagccacc gctgccgccg cctccgccgc 3301 cggagaagtc caaggaggac ctggagttcg agcatctgta cgacaagatg accacggact 3361 cgtaccagga gcgcctgaag gagcccatca aggccacggc caaggacata ccggtgccga 3421 tgatggcgcg cctgcagaag aagtcctacg aacagattac gggcagtggc agcgtgaatg 3481 cctcgcagat ctcaaaagcg gacgtggcgc cgggctctcc aggtgctgag atgtccgagg 3541 gcaatggcaa atcagcaggc ggaggaggag caggagtagc cgtgcccttc gtactcatgg 3601 tgcgcggcaa caagggtggc aagcagcagt tcaagtcctt cgtggcgccc tccgactcgc 3661 atttggccat caacctgaag ctgcaggagc agaagatacg cgaggagaag gagaaggtca 3721 agcggctgac gctcaacatc acggagcgga tcgaggagga ggactaccag gagtcgctcc 3781 tgccgccgca gcagcgcaac ttcacgcaga gctactacca gaagcccagc aagcacaagt 3841 tcaagcacca gaagggcgcg cccgatgcgg acctcatctt ccactgagac gctgctgcag 3901 ctaatggatg gaaacaaaaa gagatagctg ggatccctgg ccactctgct gctgtgcgat 3961 tgctaaccca acggaattga gataatgaga ggaggagcgc agcgctccaa gagccgtcca 4021 gcctccgagg acgttcgatc cgatgatgca tggaagcgca acatcaacct caagccgtac 4081 ttaagccaac taatccgaaa tcgatattat cgtgtacata gaaccgctgc tccccgatcc 4141 gcaaccgtat atccaacaca acgtagtacg taaaaatgcc tagacttgtt tcgaaaacag 4201 accccccaac tgaatatcaa agcatgtata caacgatata tacagaatgt tatagaatgt 4261 tatacttaat gccatgctgt tctgttccat tgatattttt gaatcaaacg cagaatacag 4321 tctgaaagtg agttttgtcg cctttatggg aatggaaaaa tcagaaaaga aaaacaaaac 4381 cttaaatgct ccctgggaag tgatcatctg catgcccgta cgccagtaag tctcgatctt 4441 tgtacgattg attttcagtg tttttagcgt tgtaccaaca taccttattt tttgtatcgc 4501 tttttcattt aataaattaa cttgaaatca acacgcatta attgttataa ctccctagga 4561 aataaacttg aattaccaca a