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LOCUS XM_017139199 4578 bp mRNA linear INV 09-DEC-2024 mediated mRNA decay (Upf2), transcript variant X1, mRNA. ACCESSION XM_017139199 VERSION XM_017139199.3 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_017139199.2. ##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..4578 /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..4578 /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 225..3884 /gene="Upf2" /codon_start=1 /product="regulator of nonsense transcripts 2" /protein_id="XP_016994688.2" /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 522..1112 /gene="Upf2" /note="Middle domain of eukaryotic initiation factor 4G (eIF4G); Region: MIF4G; smart00543" /db_xref="CDD:214713" misc_feature 1758..2309 /gene="Upf2" /note="Middle domain of eukaryotic initiation factor 4G (eIF4G); Region: MIF4G; smart00543" /db_xref="CDD:214713" misc_feature 2352..2930 /gene="Upf2" /note="Middle domain of eukaryotic initiation factor 4G (eIF4G); Region: MIF4G; smart00543" /db_xref="CDD:214713" misc_feature 3309..3734 /gene="Upf2" /note="Up-frameshift suppressor 2; Region: Upf2; pfam04050" /db_xref="CDD:461146" polyA_site 4578 /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 cgagatagaa tttcaaaaca tagcaactgg 181 gattcgagtc cagctgaagg gaatcccgtc cagaaattgc cgccatgcta gctagcgatt 241 ccgtcagccc ggccgctctg gaggcggagg tggccacaca gccggaatct ggcaaagatc 301 aggccgatga tgtggacgac aacgacgata cggatgcgga tgcagatccg gatgcagatg 361 cggaggcgga ggccacagcc ttggaggccg aggagcgcga ggagctgcag cagttcatca 421 acgagctgag cgagaagatc gaggccaagc ggcagctgcg gctgcagaac tccacgttcg 481 agctgcccgg cgaggagtac ttcgcccggc tggactccaa tctcaagaag aacacggcgt 541 tcgtgaagaa gctgaagctc ttcaccgcca cccagctgga ggggctgctg cgggagctct 601 ccgccctgaa tctgagcaag tacatctccg aaatatgcgc cgccttggcg gaggccaagc 661 tgaagatgac cgatgtgccg gcagtggtca ctctggcctc ccggctgcac tgcacctacg 721 cggatttcga tgtccagttt ctggaggcct ggcagaaggc gctgaacatc aaggccagcg 781 agaagatagc caatcccagc aagccgcgcg tggatctgcg actctttgcc gaactggtta 841 gctcgggagt gatccaaatg aagcccgggc tggcccaact gggcgtggtg ctggtgcacc 901 tgattgccca ggacaaggac gaccacagca acttctccat catcctctcc ttctgccgcc 961 actgcggcga ggagtacgcc ggcctggtgc cgcagaagat gcagcagttg gccgccaaat 1021 acggcgtgga ggtgcccaag tccgagttcc tcggcgccga caagcagctc aatctgcgca 1081 ccatgctcaa gggctacttc aaggccctgt gcaagcacgt cctggccgag caggcggagc 1141 tgatgaacat gaccaagaat atacgccgca cgatggagtg caagggcgag atatccacgg 1201 agaagcgcga gaagtgcgag ctcatgcagg cgggcttcga taagctgctg gcctcggccc 1261 agtcgctttc cgagctactg ggagaacccc tgcccgagct ggcgaaggag tcggagtgct 1321 gcaatccggg cacggtcatt gacaacatgc tggacagcgc cgccttcggg ctgctcgatc 1381 cctggggcga cgaggagacg cgctcgttct acaccgatct tccggatctt cggcagtttc 1441 tcccgaattt ctcggcaccc aaggtggatt tggagacgct cgaggagccc agtgagctca 1501 ccgaggaggc catcgaggcg aatctggatg cggaaatgga tctggacgat ccgccgtcca 1561 ccaactcgga cacggcgctc gagaatgcca gcgaggagca gccaacgacg cccgttgtgc 1621 ccgccgagga tgtgaagccg cagaaaatgg gcagcgcgct gatggaactg ggccgccagc 1681 aaagccagac gctagcccag aatcccagcc agacgcaaac gcagatgcgg cagcagttcg 1741 acggctttct ggtgaacctg ttcaactgcg tgaacaagga gctcatcgac tcggcggcca 1801 tcgagttcct gctgaacttc aacacgaagc accagcgcaa gaagctgacg cgcacgatat 1861 tctcggtgca gcgcacgcgg ctggacattc tgccctatct gtcgcgcttc gtggccatcg 1921 tgcatctgtg caacacggac gtggccaccg atctggcgga gctgctgcgc aaggagttca 1981 agtggcatat acgcaagaag aaccagctga atatcgagtc caagctgaag atcgtccgct 2041 tcatcggcga gcttgtgaag ttcgggctgt tcaagaagtt cgatgctctg ggctgcctga 2101 agatgctgct gcgcgacttc cagcaccacc agatcgagat ggcctgcgcc tttgtggagg 2161 tgagcggcgt ctatctgtac aactgccgcg acgcccgcct gctgatgaac gtcttcctgg 2221 accagatgct gcgcctcaag acggccacgg ccatggactc gcgtcactcg gcgcagatcg 2281 agagcgtcta ctatctggtc aagccgccgg agtcctcgaa gcgcgagccc accgttcggc 2341 cgcccatgca cgagtacatc cgccacctga tcttcgagga gctgtgcaag cagaatgtgg 2401 agcgttgcat caagatgctg cgccgcatcg actggctgga tccggagacc aattgctatg 2461 ccatcaagtg cctcagcaag gcgtatctgc tgcgctttcc gctcgtccgc tgcctggccg 2521 atctcgtctc gggtttgagc tcctatcagc cgcgagcggt gaccattgtg atcgacaacg 2581 tgttcgagga cattcgcgcc ggactggaga tccattcgcc gaggatggcc cagcggcgca 2641 ttgcgatggc caagtacctg ggcgagatgt acaactacaa gctggtcgag tccacgcaca 2701 tcctcaacac gctctactcg atcatctcgc tgggcgtgtc gctggaccag agcgtcgtct 2761 cgccgctgga tccgccggac agcctgttcc ggctgaagct ggcctgcatg ctgctggaca 2821 cctgcggacc ctacttcacc agccaggcca cgcggaaaaa actggactac ttcctggtct 2881 tcttccagca ctactactgg ttcaagaagt cgcatccggt gttcagcaag tcggagaaca 2941 gcgccgacct gttccccatc ctggtggacc acacctaccg cgactgcctg gccggcgtgc 3001 ggcccaagct gaagctgtac aagagtctgg agcaggcgaa ggcggccatc gatcagctgc 3061 aggagaagct ctatccgcag ctgagggcca gcagcagtgc ccaggatccc tcgctggcca 3121 ccatcagcga gatcagcgag ctggacgagg gcgccaccga cgaggactcg ggctcctcga 3181 acgaccagcg ggagcggcag gtggccggcc aggagccgga gcccgagcag agcaacgatt 3241 ggaccgagaa cgagaacgat aacgaagcgg agccaccgct gccgccgcct ccgccgccgg 3301 agaagtccaa ggaggacctg gagttcgagc atctgtacga caagatgacc acggactcgt 3361 accaggagcg cctgaaggag cccatcaagg ccacggccaa ggacataccg gtgccgatga 3421 tggcgcgcct gcagaagaag tcctacgaac agattacggg cagtggcagc gtgaatgcct 3481 cgcagatctc aaaagcggac gtggcgccgg gctctccagg tgctgagatg tccgagggca 3541 atggcaaatc agcaggcgga ggaggagcag gagtagccgt gcccttcgta ctcatggtgc 3601 gcggcaacaa gggtggcaag cagcagttca agtccttcgt ggcgccctcc gactcgcatt 3661 tggccatcaa cctgaagctg caggagcaga agatacgcga ggagaaggag aaggtcaagc 3721 ggctgacgct caacatcacg gagcggatcg aggaggagga ctaccaggag tcgctcctgc 3781 cgccgcagca gcgcaacttc acgcagagct actaccagaa gcccagcaag cacaagttca 3841 agcaccagaa gggcgcgccc gatgcggacc tcatcttcca ctgagacgct gctgcagcta 3901 atggatggaa acaaaaagag atagctggga tccctggcca ctctgctgct gtgcgattgc 3961 taacccaacg gaattgagat aatgagagga ggagcgcagc gctccaagag ccgtccagcc 4021 tccgaggacg ttcgatccga tgatgcatgg aagcgcaaca tcaacctcaa gccgtactta 4081 agccaactaa tccgaaatcg atattatcgt gtacatagaa ccgctgctcc ccgatccgca 4141 accgtatatc caacacaacg tagtacgtaa aaatgcctag acttgtttcg aaaacagacc 4201 ccccaactga atatcaaagc atgtatacaa cgatatatac agaatgttat agaatgttat 4261 acttaatgcc atgctgttct gttccattga tatttttgaa tcaaacgcag aatacagtct 4321 gaaagtgagt tttgtcgcct ttatgggaat ggaaaaatca gaaaagaaaa acaaaacctt 4381 aaatgctccc tgggaagtga tcatctgcat gcccgtacgc cagtaagtct cgatctttgt 4441 acgattgatt ttcagtgttt ttagcgttgt accaacatac cttatttttt gtatcgcttt 4501 ttcatttaat aaattaactt gaaatcaaca cgcattaatt gttataactc cctaggaaat 4561 aaacttgaat taccacaa