Typing tool
|
Complete norovirus genomes
MT229168 | GII.6 | ||
---|---|---|---|
GII.P7 |
ORF1: 1..5094 ORF2: 5075..6727 ORF3: 6727..7464LOCUS MT229168 7464 bp RNA linear VRL 29-JUN-2021 DEFINITION Norovirus GII isolate 025_GII.P7_GII.6_Palmas nonstructural polyprotein (ORF1) and VP1 (ORF2) genes, complete cds; and VP2 (ORF3) gene, partial cds. ACCESSION MT229168 VERSION MT229168.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7464) AUTHORS Tinker,R.J., da Costa,A.C., Tahmasebi,R., Milagres,F.A.P., Dos Santos Morais,V., Pandey,R.P., Jose-Abrego,A., Brustulin,R., Rodrigues Teles,M.D.A., Cunha,M.S., Araujo,E.L.L., Gomez,M.M., Deng,X., Delwart,E., Sabino,E.C., Leal,E. and Luchs,A. TITLE Norovirus strains in patients with acute gastroenteritis in rural and low-income urban areas in northern Brazil JOURNAL Arch Virol 166 (3), 905-913 (2021) PUBMED 33462673 REFERENCE 2 (bases 1 to 7464) AUTHORS Luchs,A. TITLE Direct Submission JOURNAL Submitted (22-MAR-2020) Virology, Adolfo Lutz Institute, Av Dr Arnaldo 355, Centro de Virologia, Cerqueira Cesar, Sao Paulo, Sao Paulo 01246902, Brazil COMMENT ##Assembly-Data-START## Assembly Method :: Geneious v. 9 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7464 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="025_GII.P7_GII.6_Palmas" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Brazil" /collection_date="10-Nov-2014" /note="genotype: GII.P7_GII.6" gene 1..5094 /gene="ORF1" CDS 1..5094 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QIP27781.1" /translation="MKMASNDATTAFGSQNSVNDSINTTPSNKEEAGAFSNIKVGFKK MLGAVPKGTKAPSSDQHCPTVKIGPKTLTVPPEPPNGEDTVQFDAKSETVIGLPDLTT VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPP AAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE LNDTWLSRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQ GPEDLAVELVPVVMGGIGMVLGFTAENLARMLSSAASTLRACKDLGNYALDILKLVMK WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM ARHLAKNIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRIDFLVYAESP EIEKVKRDFPGQPDMWKDCFKQDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL TARVAGLVHERKDEFQLQGDDLQTYNFDTNRVSAFRKLAADNRYGIMETMRVGAALKN VKTLEDLKVALRDVKFKECEIIYKNSKYRVSSNGKGSVSVDKVEDHTSQTANEVGSAL LRLRQARARYYVSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQEASEPEK EVAQGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY SIEEYLQDRDRYYEEVAVPVLTEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTG SDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL LITTTHVLPKGLKELFGVEVKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG KPPRPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNG ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT MIRCARAFGGLMDSMKASCVALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH ENPYESMVPHSQRATQLMALLGEASLHGPQFYKRVSKMVINEIKSGGLEFYVPRQEAM FRWMRFSDLSTWEGDRNLAPEGVNEDGVE" mat_peptide 1..1002 /gene="ORF1" /product="p48" mat_peptide 1003..2100 /gene="ORF1" /product="NTPase" mat_peptide 2101..2619 /gene="ORF1" /product="p22" mat_peptide 2620..3018 /gene="ORF1" /product="VPg" mat_peptide 3019..3561 /gene="ORF1" /product="Pro" mat_peptide 3562..5091 /gene="ORF1" /product="RdRp" gene 5075..6727 /gene="ORF2" CDS 5075..6727 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QIP27782.1" /translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG MQVQVVLAGNAFTAGKIIFAAVPPHFPVDNISAAQITMCPHVIVDVRQLEPVLLPLPD IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT VESKTKPFTLPILTLGELSNSRFPAAIDMLYTDPNESIVVQPQNGRCTLDGTLQGTTQ LVPTQICAFRGTLISQTARAADSTDSPQRARNHPFHVQLKNLDGTQYDPTDDIPAVLG AIDFKGTVFGVASQRDVSGTQEQGHYATRAHEAHIDTTDPKYAPKLGTVLIKSESTDF TTNQPIRFTPVGMGDNNWRQWELPDYSGRLTLNMNLAPAVSPSFPGERILFFRSIVPS AGGFGSGYIDCLIPQEWVQHFYQEAAPSQSAVALVRYVNPDTGRNIFEAKLHREGFLT MSGAVRNCILVPPNGYFRFEAWVNQFYTLAPMGSGQGRRRAQ" gene 6727..>7464 /gene="ORF3" CDS 6727..>7464 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QIP27783.1" /translation="MAGAFFAGLAGDVVSNGIGSLINAGANAVNQKVEYDFNKQLQMA SFKHDKEMLQSQVLATKQLQQEMMNIKQGMLTAGGFSPADAARGAVNAPMTKILDWNG TRYWAPNSMKTTSYSVPSCAIPVHRSPAPLQHTAPPKGKLQSDSASVYSSPSTVSSQS THSTVLTAGTGSSRSTATSTATSTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSK ASSNGTVSTVARPVLDSWNAKFNTHRQP" ORIGIN 1 atgaagatgg cgtctaacga cgctaccact gcctttggca gtcaaaactc tgtcaatgac 61 agtatcaaca ccaccccttc aaacaaagaa gaggctggtg cattctccaa catcaaagtt 121 ggatttaaga aaatgctggg tgccgtacct aagggcacta aagcacccag cagtgaccag 181 cactgtccaa cagttaagat cgggcccaaa acactaacag tcccccctga acccccaaat 241 ggtgaagaca ctgtgcagtt tgatgcaaaa tcggaaactg taattgggct accggacttg 301 acaacagtgc aaaatgaaca tgaaaatacc ccatacactg tccctccact gagtgagagg 361 gaacacagac cagccactga gccacttcct ggcacaatac tggagatgtg ggatggtgaa 421 ttctaccact actccgtgta cgttagcggc ggcaaagctc tgggggttca caaacctccg 481 gcagctataa gccttgcaac aatagagctc acccccatat ctctatactg gaggcctgtt 541 tacaccccca actacctggt ctgcccagac acactgaaag gtctcgctgg tgaaaagttc 601 ccctacacgg ccttcagcaa caattgctac aacttctgct gctgggtgct tgaactcaat 661 gacacgtggc ttagcagaag aagcatttcc agaaccaccg gcttcttcaa accgtaccag 721 tcttggaaca ggaaacctct cccaaccgtt gatgatggga agatcaaaaa ggtggccaac 781 gcgatccttt gtgcactcgg ttcgctgttc tcaaaaccaa tcaaggacct gctaggcaag 841 ctcaaaccat tgaacttact acatctgctc gcgtcgtgtg attggacgtt tgcaggtata 901 gtggagacag tcatcttaat ggcagaacta ttcaatgtct tttggactcc gccagacgtc 961 tctaatttta tagcctccct gataggtgat tttgaattgc aggggcctga ggacttggcg 1021 gtagagcttg ttcctgtggt catgggtggt ataggaatgg ttctcggctt cacagctgag 1081 aaccttgctc gcatgctgtc gtccgctgca tcaacactgc gggcgtgtaa agacttaggg 1141 aactatgccc ttgacatact taaattggtc atgaaatggt tcttcccaaa gaaagaggag 1201 aaagccgaga tggaaacctt gagggcgatt gaggatgccg tcctagatat ggaggccata 1261 ggtaacaacc acctcacgac cctcctcaag gataaagaca gtctcacggc cttcatgaag 1321 accttggatc tggaagaaga gaaagcaagg aagctgtcca ccaaatcatc ctcgccggac 1381 atcgtcggca ctatcaatgc catactggct aggatagctg ccgctagatc cctcctgcac 1441 aaagccaagg aagagatgtt cagcaggatc agaccagtgg ttgttatgat ctcaggcaga 1501 cctggcattg gcaaaaccca tatggcgaga catttggcta agaacatcgc caacaccatg 1561 agtggtgacc aaagagtcgg gctcgttccg cgcaatgggg ttgaccactg ggacgcttac 1621 aggggagaga gggtggtctt gtgggacgat tatggaatgg ggaaccctgt caaggatgct 1681 ttaacactgc aagagctagc tgacacatgc ccagtcactc taaactgtga caggatcgag 1741 aacaagggaa aaatgttcga cagtgatgtc atcataatca cgaccaacct agtcaaccct 1801 gcacctctcg attatgtgaa cttcgaggcg tgctctagaa gaattgattt cttggtctat 1861 gcagagtcac cagaaattga gaaggttaaa agagacttcc ctggccaacc tgacatgtgg 1921 aaagattgtt tcaaacaaga cttttcccat ataaagctaa ccctagcccc ccaaggtgga 1981 tttgacaaga atggtaacac cccgcatggt aagggcacca tgcgatccct cacccagggg 2041 tccctgaccg caagggttgc aggccttgtt catgagagga aggatgagtt ccagctacaa 2101 ggggatgacc tccagacata caactttgac accaacaggg tctctgcgtt caggaaactg 2161 gccgcagaca acaggtatgg gatcatggaa acaatgagag tgggtgcagc gctcaaaaat 2221 gtcaaaactt tggaagatct gaaagtcgcc ttgagagatg taaagttcaa agagtgtgaa 2281 ataatttaca agaactctaa gtaccgggtc tcttccaacg gcaagggctc tgtttctgtt 2341 gacaaagttg aggaccacac gtctcagacc gcaaatgaag tgggctcagc actcctcaga 2401 cttaggcaag caagggctag atattatgtc agctgcttcc aagacctcgt ctacactctc 2461 atacaggttg ctggggcgtc attcgttgtc aacaggatct ccaaaaggtt ctgttgggaa 2521 aggtgggtta aacctaccga aacccaagaa gcgagtgagc ccgaaaagga agtggctcaa 2581 ggtagatggg agatagagcc caaagacaca gaaccggagg gcaagaaggg caaaaacaag 2641 aaagggagag gcaagaaaca cacagccttc tccagcaaag gcctaagtga tgaagagtat 2701 gatgagttca agagaatcag agaagagagg aacggaaaat actccattga ggaatacctg 2761 caagaccggg accgctacta tgaagaagtg gcagtccccg tcttgacaga agaggacttt 2821 tgtgaagaag aagaagccaa gataagacaa agaatcttcc gcccaacaag gaagcaaaga 2881 aaggaggaaa ggggggtact tggcttagtc actggctcag acatcaggaa gaggagacca 2941 gatgattttc agccaaaagg caacctatgg gcagatgaca ctaggagtgt ggactacaat 3001 gagagacttg actttgaggc tccaccaagc gtctggtcaa gaatagtccc attgggcact 3061 ggttggggct tttgggtctc atcaaacctc ctgatcacaa caacacacgt cctgcccaag 3121 gggctcaagg aactctttgg ggtcgaagtc aaacaaattc aaatccacaa gtctggagag 3181 ttctgcaggt ttaggttccc aagaccaatc aggccagatg tcacaggact cgtgttggag 3241 gaaggtgctc ctgagggtac tgtctgttct atactcgtta agaggcctac aggtgagatg 3301 atccccttag cagtgaggat gggcacacat gcatccatga aaatacaggg taggaccgtc 3361 ggtggtcaga tgggaatgct tctcacaggg gcaaatgcaa agaacatgga tcttggcacc 3421 ggtcctggtg actgcggttg tccttacatc tacaagcgtg gcaacgacat agttgtcgcg 3481 ggtgtccaca ccgcagcagc ccgggggggc aacactgtta tttgtgccac tcaaggacaa 3541 gacggagagg cagtcctcga gggaaatgaa aaccttggca cctactgtgg tgctccaatt 3601 ctgggccctg gcaaagcgcc caaactcagc acaaaaacca aattttggcg atcatcacca 3661 gatgccctac ctcctggcac atatgaacct gcttatctgg ggggcaagga tcccagagtt 3721 gaaaaggggc cctccctaca gcaagttatg agagaccagc tgaaaccatt cactgagccc 3781 aggggcaaac cacctagacc agcagtttta gaagaggcta aaaagacagt gatgaatgtt 3841 ctagaacaga ccattgaccc tgctaaacca tggacttact cacaagcatg tgcttcactg 3901 gacaagacca cttctagtgg aagcccccac catgtcagga aaaatgacca ctggaatggg 3961 gagtctttta ctggtcccct agcagaccaa gcatccaaag ccaacctcat gtatgaacag 4021 gcaaaacatg tgcagcccgt gtacacggcc gcgctcaaag atgagcttgt taagactgat 4081 aagatctaca agaaaataaa gaagagactt ctgtgggggt cagaccttgg tacgatgatc 4141 aggtgtgcta gggcttttgg cggtcttatg gacagtatga aagcgagttg tgtagccctt 4201 ccatgcagag tagggatgaa catgaatgag gatggcccca tcatatttga caagcactcc 4261 aagtataggt accactatga tgctgactac tctaggtggg actcgaccca gcaaaggagc 4321 attctttccg ccgccatgga ggtgatggtg aggttctctg ctgaaccaga attggcacaa 4381 gtggtcgcag aggacctttt ggcgcctagc cagctagatg ttggcgattt tgtcatctca 4441 gtccaggagg gcctgccatc aggagtccca tgtacgtcac aatggaattc aatagcgcac 4501 tggattctaa ctctgagcgc aatggcagaa gtgtcaggtc tctcaccaga cgttgtccag 4561 gcccactcct gtttttcatt ttatggcgac gatgagatcg tcagcactga catcaacctt 4621 gaccccatga aattgacaca gaaactcagg gagtatggtc tggtccccac ccggcctgat 4681 aagactgaag gccccctcgt tataactgaa gacctaaccg gcctgacttt cctgcgtaga 4741 tcgattgcac gggatccagc tggatggttt ggaaaattgg atcaagactc aatcctcaga 4801 caattgtact ggacaagggg gcccaatcat gaaaacccat acgagagcat ggttccccac 4861 tcccagcgag ctactcagct catggccctt cttggtgagg cttcattgca tggtccccag 4921 ttttacaaga gagtcagcaa gatggttatc aatgagatta agagtggtgg tctggagttt 4981 tatgtgccca gacaagaggc catgtttagg tggatgagat tctctgacct cagcacatgg 5041 gagggcgatc gcaatcttgc tcccgagggt gtgaatgaag atggcgtcga atgacgccgc 5101 tccatcaaat gatggtgctg ccaacctcgt accagaggcc aacaatgagg ttatggcact 5161 tgaaccggtg gtgggagctt caatcgcagc tcctgttgtc ggtcaacaga atataattga 5221 cccctggatt agagaaaatt ttgttcaagc gccacagggc gagtttactg tttcaccaag 5281 gaactcgccc ggtgaaatgc ttctaaatct tgaattgggc ccagaactta acccctattt 5341 gagtcatttg tcccgcatgt acaatgggta tgctggtggc atgcaggttc aggtggtcct 5401 agctgggaat gcgttcacag ctgggaagat catctttgcc gctgtgccac cgcacttccc 5461 tgtggataat attagtgcag cccagataac tatgtgcccc catgtgattg ttgatgtgag 5521 acagcttgaa ccagtgcttc tacccctccc cgatataagg aatagattct tccattacaa 5581 ccaagaaaac accccccgga tgagactcgt ggccatgctc tacacgcctc taagggctaa 5641 ttccggagag gatgtgttca ctgtgtcctg tagggttctg acccgccctg ccccagattt 5701 tgaattcaca tttttagttc caccaactgt tgaatcaaaa acaaaaccct ttactctacc 5761 tattctaacc cttggtgagt tgtctaattc ccgttttcct gctgctatag atatgcttta 5821 cactgatccc aatgaatcaa tagttgttca gccccaaaat ggtagatgta cccttgacgg 5881 cacgttgcaa ggcacaacac aattggtccc aacacagatt tgtgccttta gaggcaccct 5941 gatcagccag actgcgagag cggccgattc aacagattcc ccccagcgag cccgtaatca 6001 ccctttccac gttcagctca agaacctgga tggcacacag tatgacccaa cagatgacat 6061 ccctgcagtc ctgggggcca ttgacttcaa aggtacagtg ttcggagtgg caagccagag 6121 ggacgtctct ggaacacaag aacagggcca ttatgccacc cgggctcacg aagcacacat 6181 tgatacaact gacccaaagt atgcacctaa attaggcaca gttctcatca aatctgaatc 6241 tactgatttc accacaaatc agcccattag gttcactcca gtgggtatgg gtgataacaa 6301 ttggagacag tgggaattgc ctgactactc tggtagattg actctgaata tgaatcttgc 6361 ccctgctgtt tccccatcct tccctggcga acgaatcctt ttctttaggt ctatagtacc 6421 atcagctggg ggcttcgggt ctggctatat agactgtctc ataccccagg aatgggtgca 6481 acacttctac caggaggcag caccttcaca gtctgctgtt gcactggtta ggtacgttaa 6541 ccccgacact gggcgtaaca tctttgaggc caagttgcac agagaagggt tcctcaccat 6601 gtctggagct gtacgcaact gtatactggt tccccctaat ggttatttta gatttgaagc 6661 ttgggttaac caattctaca cacttgcccc catgggatct ggacaggggc gtaggagagc 6721 tcagtaatgg ctggagcctt cttcgcaggg ttagcaggcg atgtcgtgtc gaacggcatc 6781 ggttccctca tcaatgcagg tgctaatgca gtcaatcaaa aggttgagta tgattttaat 6841 aagcaacttc agatggcatc atttaaacat gataaggaga tgttgcaatc acaggtgttg 6901 gcaaccaaac aactgcagca ggaaatgatg aacataaagc aggggatgtt gaccgctggc 6961 ggcttttccc ctgcggacgc tgctagaggg gctgttaacg ctccaatgac aaaaatactg 7021 gattggaatg gcacaagata ttgggcacct aatagcatga aaaccacaag ctattcggtg 7081 ccatcttgtg ccattccagt ccataggtct cctgctcccc ttcagcacac cgccccacca 7141 aaaggtaagt tgcaaagtga ttctgctagt gtgtatagct ccccttccac tgtttcttca 7201 caatcaactc attcaacagt gttgactgca ggaactgggt cgtccaggtc caccgccacg 7261 tccacagcaa cctccaccct gtccaggacc agtgactggg ttagaggaca gaatgaaagg 7321 cttagcccgt ttatggatgg tgctctccaa actacttttg tcacaccacc atcgagcaaa 7381 gcttcatcaa atgggacagt ctcgaccgtg gcgaggcctg ttttggactc ctggaacgct 7441 aagttcaata cgcataggca gcct //