ID FJ438908; SV 1; linear; genomic RNA; STD; VRL; 7215 BP. XX AC FJ438908; XX DT 13-JAN-2009 (Rel. 99, Created) DT 13-JAN-2009 (Rel. 99, Last updated, Version 1) XX DE Human cosavirus D1 polyprotein gene, complete cds. XX KW . XX OS Human cosavirus D1 OC Viruses; Riboviria; Picornavirales; Picornaviridae; Cosavirus. XX RN [1] RP 1-7215 RX DOI; 10.1073/pnas.0807979105. RX PUBMED; 19033469. RA Kapoor A., Victoria J., Simmonds P., Slikas E., Chieochansin T., Naeem A., RA Shaukat S., Sharif S., Alam M.M., Angez M., Wang C., Shafer R.W., Zaidi S., RA Delwart E.; RT "A highly prevalent and genetically diversified Picornaviridae genus in RT South Asian children"; RL Proc. Natl. Acad. Sci. U.S.A. 105(51):20482-20487(2008). XX RN [2] RP 1-7215 RA Kapoor A., Victoria J., Simmonds P., Slikas E., Chieochansin T., Naeem A., RA Shaukat S., Sharif S., Alam M.M., Angez M., Wang C., Shafer R.W., Zaidi S., RA Delwart E.; RT ; RL Submitted (05-NOV-2008) to the INSDC. RL Molecular Virology, Blood Systems Research Institute, 270, Masonic Avenue, RL San Francisco, CA 94118, USA XX DR MD5; 8fb476068716547b68224b2883bc8a29. DR EuropePMC; PMC2615758; 19102772. DR EuropePMC; PMC2629322; 19033469. DR EuropePMC; PMC3810744; 24047954. DR EuropePMC; PMC6098101; 30120342. DR RFAM; RF00210; IRES_Aptho. XX FH Key Location/Qualifiers FH FT source 1..7215 FT /organism="Human cosavirus D1" FT /host="Homo sapiens" FT /strain="HCoSV-D1" FT /isolate="5004" FT /mol_type="genomic RNA" FT /country="Pakistan" FT /isolation_source="feces" FT /db_xref="taxon:586468" FT 5'UTR <1..747 FT /note="contain type II IRES elements" FT CDS 748..7128 FT /codon_start=1 FT /product="polyprotein" FT /db_xref="GOA:B8XTQ4" FT /db_xref="InterPro:IPR000199" FT /db_xref="InterPro:IPR000605" FT /db_xref="InterPro:IPR001205" FT /db_xref="InterPro:IPR001676" FT /db_xref="InterPro:IPR004004" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR009003" FT /db_xref="InterPro:IPR014759" FT /db_xref="InterPro:IPR027417" FT /db_xref="InterPro:IPR029053" FT /db_xref="InterPro:IPR033703" FT /db_xref="InterPro:IPR037080" FT /db_xref="UniProtKB/TrEMBL:B8XTQ4" FT /protein_id="ACL15191.1" FT /translation="MGANNSKESVSSNGNQGTIVNNFYANSYYASIDASASSVGGDTPA FT ENGTVSGILGSFASAFTSAALLAKPKVENDTNMEDRVITLKAGNTIVNSQASEGVLHGY FT GIGTNTQRPSSCGDDPSIATHCIERGFTINLADWDKSKESWQALVYRLSDHLKDDTVGN FT MFSKTLGTHAYTKCGYRVSLQINTSPFHSGLIGLFLVPECCIPASLNMDWIDLKTQLPL FT LTSSSHYQGLGLSTGQGTISEKGSIDAAGTIPQQLFIYPHQLINPKDTNIASVEVPYVN FT CAPTSDPMIHNIWTALVVVIAPLQSNASASPTVAMSMTVTPVGAVFNGLRHPAPNVQTA FT IPVRMTQNSGQFSTTLPARMEPCYGLTPNPTRDFLPPVVEDLLSIAKVPCFLLADEDTT FT KQKPYFLISNASSTQTAVFEMNVILSEYALQRTFVSMFGKFFCNYRGSIQITAWAAVTA FT MTRGKLLFSYTPPGAGKPQNIKQAMMGTYTIWDLGLQSTLNFTIPYISSVDFRINSRAV FT ASALNADGWLTIWILNPITYPPQTPPQQAILLMASAGSDFSYRLPINPPFVQGDIHDNA FT EKGLTETTDATQFCGAAVGYTTNHSNCEFFFDRYRFVGFIDAVRNNKRSVISVFDSNNK FT VKRIAELFKEPNKPGNYFTLSPNPAISTTPMSAYIVIDHPSSTSSPYTQYAIATTGDPF FT FLRSCPFTYFHCDLEVTIKPENAVSGVWRATWYPPGSDLKEDEVVPSFRTTGESGNMSL FT TVNNRERSTIYNTYPTFYSRDGQCVSFNIPYTSPLSVIPTRFDGYPDYSRTVGAYGVAP FT ANHFGTLTVAANDEGYKFFVYVRYKNFKGYVPKTLPPQPLFLKNSRSLTNETIIARPYI FT RESSNVSRLKLLLSGDIETNPGPNHSKFQVQGSMSDFLNVARKPETLDNVTRLLTTLNN FT LMNKWNNVKHMCTDSYFLRDILCLLVKLTSLSYLVAGQGPSAYLAASAVLIADGISFLD FT WYEKIKRFLGSRFRVPPPIFTLAQGPDLRDLVTFFNAARGAQWMVDSIRGLISWIKQWL FT ELEEANEAVQFERLLIESPKHCKAINDYNVGKSFIRPENSFDFMEKLVDSATKLGKVNI FT AGYFRSFTSVDTDTARMEPVVLVLRGKPGAGKSAAATIITAAVSKILTGTQSVYSLSPD FT TEHMDGYHGQFAMIMDDLGQNPDGEDFRTFCQMISVAQYRPSMADLKDKGILFKSQFIV FT ATTNLPEFRPLTVSDRGAVDRRITFDIGVTPGTAVTKNGKLDLAMALKPDGEGEFPYSC FT DCQILHTTGLALQNLRTGKTMNIKELVDLIVKKIKSKRTTSGMLEGLVVQSPKIVGYTK FT DDEGVVIVDCLEDWHRIRDKKRKQQALEMVAEEMQIQHDKHSQTISLIKQFLSGLGVVA FT AVGAAFAAGKVLKNMMTSDRAQDEPDSESQEKTEEKQKAEGPYNGPTKKELKTLKLKAQ FT GPLLDLEKKVLANVQPFILRVAGRDYIQSCLFVGKRVFLVNKHAIDSVEQKFQVAGKTY FT DLDDVDVAILDTEYGLTDVAAVKLNTGPEWKNLSKLFVSLDTTLHPGTRITILSNDQLN FT MVREGSFLRNEDDIPTNIGPIPFVMLYKASSYFGMCGSAVVTRIGDCPGILGLHCAGGG FT GVCVASRVTKRMVETVLKYFYPPQVQGQIINTENGPRVHVPRQSKLKRTNAVYPATPKY FT GPAVLSKNDPRLDPDVDFDKVIFSKHVANVVIDEDTSFWNALKMSAQIYAEKFKGVDFS FT PLTVEEAILGIPGLDRMDPNTASGLPYTKTRRQMIDFQEGKILDPELQSRLDTWLSNKQ FT PEMLYQTFLKDEIRPIEKVKAGKTRIIDVTPLDHVLAFRIVLGRFMAHFHNNYGFNLGS FT AVGCDPDVAWANFGFALSSKKYQYDFDYSNFDASHSESIFELLKQFVFTKDNGFDHRCS FT LMIDSLVTSTHCYEQQRMTIRGGLPSGTSGTSVINTIINNIIFKAALYHTYSNFEWDDV FT QMLAYGDDIVAASDCLLDLDRVKDFMAHIGYKITPADKGEKFIPKCMQNIQFLKRSFRK FT VAGVWAPIMDLENLQAMLSWYKPGTLQEKLDSVARLAHFCGEKDYDKLFETFVKDGFQI FT KPWKQLHFEWLNRFTE" FT mat_peptide 748..951 FT /product="VP4" FT mat_peptide 952..1761 FT /product="VP2" FT mat_peptide 1762..2454 FT /product="VP3" FT mat_peptide 2455..3336 FT /product="VP1" FT mat_peptide 3337..3426 FT /product="2A" FT mat_peptide 3427..3786 FT /product="2B" FT mat_peptide 3787..4749 FT /product="3C" FT mat_peptide 4750..5073 FT /product="3A" FT mat_peptide 5074..5130 FT /product="3B" FT /note="VPg" FT mat_peptide 5131..5739 FT /product="3C" FT /note="Pro" FT mat_peptide 5740..7125 FT /product="3D" FT /note="RdRp" FT 3'UTR 7129..>7215 XX SQ Sequence 7215 BP; 2085 A; 1580 C; 1484 G; 2066 T; 0 other; tggcagtcct tgaaacgtgt ggtgcgacgt ctaaccatta tggcagtggg tggagtactg 60 caaagatgtc accgtgcttt acacggtttt tgaaccccac accggctgtt tggcgcttgc 120 aggacagtag gtatattttc tttcatttct cttttctagc cgcgtaggtt ctatctacgc 180 gggcggagtg atactcccgc tccttcttgg acaggcggcc tccacgctct ttgtggatct 240 taaggctgcc aagtcactgg tgtttgaagt gaagaatgga gagacactag ggcgtttcat 300 gtggctttgc cagggattgt agcgatgctg tgtgtgtgtg cggatttccc ctcgtggcga 360 cacgagcctc acaggccaaa agccctgtcc gaaaggaccc acacagtggg gttgccccga 420 cccctccctt caaagctttg tgtaaacaaa cttttgttta gactttctta agcttctctc 480 acatcaggcc ccaaagatgt cctgaaggta ccctgtgtat ctgaggatga gcaccaccaa 540 ctacccggac ttgtgggacg tgtcccacag acgcatgtgg tattccagcc ccctcctttt 600 gaggaggggg cttttgctcg ctcagcacag gatctgatca ggagattcat ctctggtgct 660 ttacaccaga gcatggattt aaaaattgcc caaggcctgg caaacaacct aggggactag 720 gttttctcta ttttaaaaga tgtcaatatg ggtgcaaata atagcaagga gagtgtgtcc 780 agcaatggca atcagggtac tattgtcaat aatttttatg ctaactcata ttatgcttct 840 attgacgctt ctgcctcctc agtcgggggc gatactcctg ctgaaaatgg tactgtatct 900 ggcattctcg gaagttttgc ttctgctttc acttccgctg cactactagc aaaaccaaaa 960 gttgaaaatg acacaaacat ggaagacaga gtaataacac tcaaagcagg aaatacaatt 1020 gtcaattctc aggcttctga aggtgttcta catggttatg gcattggaac aaacacacag 1080 agaccctctt catgtggtga tgacccctca attgcgacgc actgtattga gcgagggttt 1140 accatcaatt tggctgactg ggacaaatcc aaggaatcat ggcaggcact tgtttacaga 1200 ctctcagatc atttgaaaga tgatacagta ggtaacatgt tttccaagac tttgggaacc 1260 cacgcttata ctaagtgtgg ttacagagtc agtctgcaaa ttaacacatc tccctttcac 1320 tccggtctta ttggcttatt cttagttcca gagtgttgta tacctgctag cttgaatatg 1380 gattggattg atttaaaaac tcagctacca ttactgacaa gcagctcgca ctaccagggt 1440 ttaggtcttt caacaggtca agggacaata tctgaaaagg gttctattga tgctgctggt 1500 acaattcctc aacaactctt catatatcca caccagttga ttaacccaaa agacacaaac 1560 atagcctcag ttgaagttcc ttatgtaaat tgtgctccca cctcagatcc aatgatacac 1620 aacatttgga ctgctcttgt agtagttata gctcctctcc agtctaatgc atcagcttct 1680 cctactgtag caatgtctat gactgtaact ccagtgggtg ctgtctttaa cggactaaga 1740 caccctgctc ctaatgtaca aacagcaata cctgttagaa tgacacaaaa ttctggacag 1800 ttttccacaa ctcttcctgc tagaatggaa ccatgttatg gcttaactcc caaccccacc 1860 agagactttc ttcccccagt agtcgaagat ttactcagca tagcaaaagt cccttgtttc 1920 ctgctggcag atgaagatac cacaaaacag aaaccctatt ttcttatttc aaatgcctct 1980 tcaactcaaa cagctgtttt tgaaatgaat gtcatactca gtgaatatgc gctccagcgc 2040 acctttgtgt caatgtttgg aaagtttttc tgtaactaca gaggcagtat acagattacc 2100 gcctgggcag ctgtgacagc aatgactagg ggaaagttgc tcttctctta cacaccacca 2160 ggtgcaggta aaccacaaaa cataaaacaa gcaatgatgg gtacctacac catatgggac 2220 ttgggtctcc aatccactct taatttcacc attccttaca tctccagtgt agactttaga 2280 attaactcta gggctgttgc ttctgccttg aatgctgacg ggtggcttac tatttggatc 2340 ctcaatccta taacttatcc tccacagact cctccacaac aagccatttt gttaatggct 2400 tctgcaggtt ctgatttttc atacagattg cctataaacc ctcccttcgt ccaaggagat 2460 atccatgaca acgcagaaaa gggactcact gaaacaactg atgcaaccca gttctgtggt 2520 gccgctgttg ggtacacaac aaatcattca aattgtgaat tcttctttga tagatataga 2580 tttgtaggtt ttatagatgc tgttagaaac aacaaaagaa gtgtgatttc tgtttttgac 2640 tcaaacaaca aagtcaagag aattgctgaa ttgtttaaag aaccaaacaa accaggtaat 2700 tatttcactt tatcaccaaa cccagcaatt tcgacaactc ctatgtcagc ttacattgtc 2760 atagatcatc cttcttcaac ttcaagccct tacactcagt atgctattgc aacaactggt 2820 gatcccttct ttctaagatc ttgccccttc acatactttc actgtgattt agaggtaaca 2880 ataaaaccag aaaatgcagt ttcaggtgtt tggcgcgcca cttggtatcc accaggctcg 2940 gacttaaaag aagatgaggt tgttccaagt tttaggacta caggtgaatc tggtaatatg 3000 tctcttactg taaacaatag agagaggtca acaatatata atacttatcc caccttttac 3060 tctagggatg gtcagtgtgt ttcttttaac ataccctaca cctcacctct tagtgttatt 3120 cctaccagat ttgatggtta tcctgactat tcaaggactg ttggtgcata cggtgtggcc 3180 cctgcaaacc actttggcac tttgactgta gctgctaatg atgaaggtta caaattcttt 3240 gtttatgtta gatacaaaaa cttcaaaggg tatgtcccca agaccctacc tccacaacca 3300 ctgtttttaa agaattccag aagtttgact aatgaaacaa taatagcaag accttacatt 3360 agagagagca gcaatgtctc tagattaaag ctcctacttt caggtgacat tgaaacaaat 3420 cctggaccta atcactctaa atttcaggta caaggatcca tgtcagattt tttaaatgtg 3480 gccagaaaac cagaaacatt ggataatgtg accaggcttt taactacttt aaataatcta 3540 atgaataaat ggaacaatgt taaacatatg tgtactgatt cttattttct aagagatatt 3600 ctgtgcttgc ttgttaagct tacatcactc tcataccttg ttgcaggaca gggaccttct 3660 gcttacttag ctgcttccgc tgtgctcatt gcggacggca tttctttcct tgactggtat 3720 gaaaaaataa aaagatttct tggttctcgt tttcgagttc cacctcctat cttcactctt 3780 gcccaaggac cagatcttag agacttagtt actttcttta atgctgctag gggcgcacag 3840 tggatggttg attccatccg tggactgatt tcatggatca aacaatggct tgaactggaa 3900 gaagcaaacg aagctgtcca attcgaaaga ctgttgatag aaagtcccaa gcactgcaag 3960 gcaataaatg actacaatgt tggaaaaagc tttattagac cagagaactc ctttgacttc 4020 atggaaaaac ttgtggattc tgccacaaaa cttggaaaag tgaacattgc aggttatttc 4080 agatctttta cctcggttga cacagataca gcaagaatgg aaccagttgt cttggtacta 4140 cgtggcaaac caggagctgg aaaatcagca gcagctacta tcatcacagc tgctgtctcc 4200 aaaattttga caggaactca atctgtttat tctctctccc ctgacactga acacatggac 4260 ggatatcacg gccagtttgc aatgatcatg gatgatttag gacaaaaccc agatggagaa 4320 gactttagaa ctttctgtca aatgatttca gttgcacaat acagaccttc aatggctgac 4380 ttaaaggaca aaggcatttt gtttaaatcc cagtttattg ttgcaacaac aaatttacca 4440 gagtttagac ctttgactgt ttctgatcgc ggagctgttg accgcagaat aacatttgat 4500 attggtgtga ccccaggtac tgctgtaaca aaaaatggaa agcttgacct tgccatggct 4560 ttgaaaccag acggtgaggg agagttccct tactcgtgtg attgccagat attacacact 4620 actggacttg ctctacagaa cctcagaaca ggcaaaacaa tgaacatcaa ggaattagtt 4680 gatttaattg taaagaaaat caagagcaaa aggactacaa gcggaatgct tgaaggactg 4740 gtggtgcagt cgcccaaaat tgtaggctac accaaggacg acgagggcgt cgtcattgtt 4800 gactgtctcg aggattggca cagaattcga gacaagaaaa gaaagcaaca ggctcttgag 4860 atggttgcag aggagatgca aattcaacat gacaaacatt ctcagaccat ttccttgata 4920 aaacagtttc tctcagggct cggtgtggtg gctgctgttg gagccgcctt tgccgcaggc 4980 aaggtactga aaaacatgat gacctcagac cgggcacagg atgaaccaga ctctgaatcc 5040 caggagaaga ctgaagaaaa acaaaaagct gaaggaccat acaatggacc aacaaagaag 5100 gaactgaaaa ctctaaagct gaaagcccag ggccccttgt tggatcttga aaagaaggtc 5160 ctcgctaacg tgcagccttt cattttgcgc gttgctggta gagactacat tcaatcttgt 5220 ctctttgttg gaaaaagggt tttccttgtg aacaaacatg caattgactc agttgaacaa 5280 aaatttcaag ttgcaggaaa aacatatgac ttggatgatg ttgatgtggc aattcttgac 5340 acggaatatg gacttacgga tgttgcagct gtcaagctca acacaggccc agaatggaaa 5400 aacctttcaa aactctttgt ttcactggac acgactctac acccaggaac caggataacg 5460 attttgtcta acgaccaact taacatggtg agagagggta gttttctcag aaatgaggat 5520 gacataccca ccaatattgg cccaatacct tttgtcatgc tttataaggc ttcctcttac 5580 tttggtatgt gtggttctgc tgttgtgacc agaattggtg attgtcccgg aattcttggt 5640 ctccattgtg ctggcggtgg gggtgtgtgt gtggcttcca gagttacaaa aagaatggta 5700 gaaactgtcc taaaatactt ttatccacct caggtacagg gacaaattat aaacacagaa 5760 aatggacccc gtgtgcatgt tcccagacag tctaagctca aaagaacaaa tgctgtttat 5820 cctgctactc caaaatatgg acctgctgtg ctttctaaga atgatcccag gcttgaccca 5880 gatgtggact ttgacaaagt aattttctca aaacatgttg ccaacgtggt tattgatgag 5940 gacactagtt tctggaatgc cctaaaaatg tctgcccaaa tatacgcaga aaaattcaaa 6000 ggtgttgact tctcccctct cactgtagag gaagcaattc ttggaattcc aggacttgac 6060 cggatggacc ccaatactgc ttcaggatta ccctatacta aaactagaag acagatgatt 6120 gattttcagg aagggaaaat acttgaccca gaactccaat ccagacttga cacttggctt 6180 tcaaataaac aaccagaaat gctctaccaa acatttttaa aagatgaaat cagaccaatt 6240 gaaaaagtaa aagctggtaa aaccagaatt attgatgtga ccccccttga ccatgttttg 6300 gcattcagaa ttgttctagg cagattcatg gctcattttc acaataatta tggttttaat 6360 cttggttctg ctgttggatg cgatcccgac gttgcttggg ccaactttgg ctttgctctt 6420 tcttctaaga agtaccagta tgactttgat tactcaaact ttgatgcttc tcattcagag 6480 tccatctttg aacttcttaa acagtttgtt ttcaccaaag acaatggttt tgatcacaga 6540 tgctctctca tgattgattc tctggttacc tcgacccact gctatgagca acaaagaatg 6600 accattcgcg gcggacttcc ttcaggaacc tcaggaactt cagtcataaa cacaatcatc 6660 aacaatatca ttttcaaggc tgctttgtat cacacctata gcaactttga gtgggatgat 6720 gtgcagatgt tggcttacgg tgatgacatt gttgccgctt cagactgcct acttgacctg 6780 gacagagtga aagatttcat ggcacatatt ggctacaaga tcactccagc tgacaaagga 6840 gagaaattca ttccaaaatg catgcagaac attcagttct tgaaacgcag cttccgcaag 6900 gttgctggcg tgtgggctcc tatcatggat ttggaaaatc ttcaggctat gctttcatgg 6960 tacaaaccag gaactctcca agaaaaactt gacagtgtgg ctcgtctcgc tcacttttgt 7020 ggcgaaaaag actatgataa attgtttgaa acctttgtca aagacgggtt tcaaataaag 7080 ccctggaaac agttgcattt tgaatggctc aatagattta cagagtagat tggcacttgc 7140 tctgttttgt tcagtttatt tcaattaggc taatttgact taatttggac atttattggg 7200 tgtttcaatt tttga 7215 //