Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MW305616 | GII.6 | |
|
|---|---|---|---|
| GII.P7 |
ORF1: 1..5063
ORF2: 5044..6696
ORF3: 6696..7475
LOCUS MW305616 7529 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate Arg10896 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305616
VERSION MW305616.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7529)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E.,
Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H.,
Green,K.Y. and Parra,G.I.
TITLE Genome-wide analyses of human noroviruses reveal coexistence of
viral populations evolving under recombination constraints
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7529)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E.,
Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H.,
Green,K.Y. and Parra,G.I.
TITLE Direct Submission
JOURNAL Submitted (23-NOV-2020) CBER/OVRR/DVP/LHV, U.S. Food and Drug
Administration, 10903 New Hampshire Avenue, Silver Spring, MD
20993, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: High-performance Integrated Virtual
Environment (HIVE) v. 2
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7529
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Arg10896"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Argentina"
/collection_date="2013"
/note="genotype: GII.6[GII.P7]"
gene <1..5063
/gene="ORF1"
CDS <1..5063
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59184.1"
/translation="FGSQNSVNDSINTTSSNKEEAGAFSNIKVGFKKMLGAVPKGTKA
PSSDQHCPTVKIGPKTLTVPPEPPNGEDTVQFDVKSETVIGLPDLTTVQNEHENTPYT
VPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPPAAISLATIELT
PISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLSRRSI
SRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLL
HLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQGPEDLAVELVP
VVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAE
METLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLSTKSSSPDI
VGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKNIANT
MSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQELADTCPVTLNCD
RIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRIDFLVYAESPEIEKVKRDFPG
QPDMWKDYFKQDFSHIKLTLAPQGGFDRNGNTPHGKGTMRSLTQGSLTARVAGLVHER
KDEFQLQGDDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKNVKTLEDLKVAL
RDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDHTSQTANEVGSALLRLRQARARYY
VSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQEASEPEKEVAQGRWEIEP
KDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYLQDRDR
YYEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTGSDIRKRRPDDF
QPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKG
VKELFGVEVKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSILVKRPTGE
MIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDI
VVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPGKAPKLSTKTKF
WRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPPRPAVLEEA
KKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNGESFTGPLADQA
SKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIRCARAFGGL
MDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQRSILSAAME
VMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAHWILTL
SAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREYGLVPTRPDKTE
GPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHENPYESMVPHS
QRATQLMALLGEASLHGPQFYKRVSKMVINEIKSGGLEFYVPRQEAMFRWMRFSDLST
WEGDRNLAPEGVNEDGVE"
mat_peptide <1..971
/gene="ORF1"
/product="p48"
mat_peptide 972..2069
/gene="ORF1"
/product="NTPase"
mat_peptide 2070..2588
/gene="ORF1"
/product="p22"
mat_peptide 2589..2987
/gene="ORF1"
/product="VPg"
mat_peptide 2988..3530
/gene="ORF1"
/product="Pro"
mat_peptide 3531..5060
/gene="ORF1"
/product="RdRp"
gene 5044..6696
/gene="ORF2"
CDS 5044..6696
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59185.1"
/translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVDNISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAAIDMLYTDPNESIVVQPQNGRCTLDGTLQGTTQ
LVPTQICAFRGTLISQTARATDSTDSPQRARDHPLHVQVKNLDGTQYDPTDDIPAVLG
AIDFKGTVFGVASQRDVSGTQEQGHYATRAHEAHIDTTDPKYAPKLGTILIKSESTDF
TTNQPIRFTPVGMGDNNWRQWELPDYSGRLTLNMNLAPAVSPSFPGERILFFRSIVPS
AGGFGSGYIDCLIPQEWVQHFYQEAAPSQSAVALVRYVNPDTGRNIFEAKLHREGFLT
VANSGNNPIVVPPNGYFRFEAWVNQFYTLAPMGSGQGRRRAQ"
gene 6696..7475
/gene="ORF3"
CDS 6696..7475
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59186.1"
/translation="MAGAFFAGLAGDVVSNGIGSLINAGANAVNQKVEYDFNKQLQMA
SFKHDKEMLQSQVLATKQLQQEMMNIKQGMLTAGGFSPADAARGAVNAPMTRILDWNG
TRYWAPNSMKTTSYSGQFSSSPVHRSPAPLQHTAPPKGKLQSDSASVYSSPSTVSSQS
THSTVLSAGTGSSRSTPTSTATSTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSK
ASSNGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN
1 cctttggcag tcaaaactct gtcaatgaca gtatcaacac cacctcttca aacaaagaag
61 aggctggtgc attctccaac atcaaagttg gatttaagaa aatgctgggt gccgtaccta
121 agggcactaa agcacccagc agtgaccagc actgcccaac agttaagatc gggcccaaaa
181 cactaacagt cccccctgaa cccccaaatg gtgaagacac tgtacagttt gatgtaaagt
241 cggaaactgt aattgggcta ccggacttga caacagtgca aaatgaacat gaaaataccc
301 catacactgt ccctccactg agtgagaggg aacacagacc agccactgag ccgcttcctg
361 gcacaatact ggagatgtgg gatggtgaat tctaccacta ctccgtgtac gtcagcggcg
421 gcaaagctct gggggttcac aaacctccgg cagctataag cctcgcgaca atagagctca
481 cccccatatc tctatactgg aggcctgttt acacccccaa ctacctggtc tgcccagaca
541 cactgaaagg tctcgctggt gaaaagttcc cctacacggc cttcagcaac aattgctaca
601 acttctgctg ctgggtgctt gaactcaatg acacgtggct tagcagaaga agcatttcca
661 gaaccaccgg cttcttcaaa ccgtaccagt cttggaacag gaaacctctc ccaaccgttg
721 atgatggaaa gatcaaaaag gtggccaacg cgatcctttg tgcactcggt tcgctgttct
781 caaaaccaat caaggacctg ctaggcaagc tcaaaccatt gaacttacta catctgctcg
841 cgtcgtgtga ttggacgttt gcaggtatag tggagacagt catcttaatg gcagaactat
901 tcaatgtctt ctggactccg ccagacgtct ctaattttat agcctccctg ataggtgatt
961 ttgaactgca ggggcctgag gacttggcgg tagagcttgt tcctgtggtc atgggtggta
1021 taggaatggt tctcggcttc acagctgaga agataggtcg catgctgtcg tccgctgcat
1081 caacactgcg ggcgtgtaaa gacttaggga actatgccct tgacatactt aaattggtca
1141 tgaaatggtt cttcccaaag aaagaggaga aagccgagat ggaaaccttg agggcgattg
1201 aggatgccgt cctagatatg gaggccatag gtaacaacca cctcacgacc ctcctcaagg
1261 ataaagacag tctcacggcc ttcatgaaga ccttggatct ggaagaagag aaagcaagga
1321 agctatccac caaatcatcc tcgccggaca tcgtcggcac tatcaatgcc atactggcta
1381 ggatagctgc cgctagatcc ctcctgcaca aagccaagga agagatgttc agcaggatca
1441 gaccagtggt tgttatgatc tcaggcagac ctggcattgg caaaacccat atggcgagac
1501 atttggctaa gaacatcgcc aacaccatga gtggtgacca aagagtcggg ctcgttccgc
1561 gcaatggggt tgaccactgg gacgcttaca ggggagagag ggtggtcttg tgggacgatt
1621 atggaatggg gaaccctgtc aaggatgctt taacactgca agagctagct gacacatgcc
1681 cagtcactct aaactgtgac aggatcgaga acaagggaaa aatgttcgac agtgatgtca
1741 tcataatcac gaccaaccta gtcaaccctg cacctctcga ttatgtgaac ttcgaggcgt
1801 gctctagaag aattgatttc ttggtctatg cagagtcacc agaaattgag aaggttaaaa
1861 gagatttccc tggccaacct gacatgtgga aagattattt caaacaagac ttttcccaca
1921 taaagctaac cctagccccc caaggcggat ttgacaggaa tggtaacacc ccacatggta
1981 agggcaccat gcgatccctc acccaggggt ccctgaccgc aagggttgca ggccttgttc
2041 atgagaggaa ggatgagttc cagctacaag gggatgacct ccagacatac aactttgata
2101 ccaacagggt ctctgcgttc aggaaactgg ctgcagacaa caagtatggg atcatggaaa
2161 caatgagagt gggtgcagcg ctcaaaaatg tcaaaacctt ggaagatctg aaagtcgcct
2221 tgagagatgt aaagttcaat gagtgtgaaa taatttacag gaactctaag taccgggtct
2281 cttccaacgg caagggctct gtttctgttg acaaagttga ggaccacacg tctcagaccg
2341 caaatgaagt gggctcagca ctcctcagac ttaggcaagc aagggctagg tattatgtca
2401 gctgcttcca agacctcgtc tacactctca tacaggttgc tggggcgtca ttcgttgtca
2461 ataggatctc caaaaggttc tgttgggaaa ggtgggttaa accaaccgaa acccaagaag
2521 cgagtgagcc cgaaaaggaa gtagctcaag gtagatggga gatagagccc aaagacacag
2581 aaccggaggg caagaagggc aaaaacaaga aagggagagg caagaaacac acagccttct
2641 ccagcaaagg cctaagtgat gaagagtatg atgagttcaa gagaatcaga gaagagagga
2701 acggaaaata ctccattgag gaatacctgc aagaccggga ccgctactat gaagaagtgg
2761 cagttgcccg agcaacagaa gaggactttt gtgaagaaga agaagccaag ataagacaaa
2821 gaatcttccg cccaacaagg aagcaaagaa aggaggaaag gggggtactt ggcttagtca
2881 ctggctcaga catcaggaag aggagaccag atgattttca gccaaaaggc aacctatggg
2941 cagatgacac taggagtgtg gactacaatg agagacttga ctttgaggca ccaccaagcg
3001 tctggtcaag aatagtccca ttgggcactg gttggggctt ctgggtctca tcaaacctcc
3061 tgatcacaac aacacacgtc ctgcccaagg gggtcaagga actctttggg gtcgaagtca
3121 aacaaattca aatccacaag tctggagagt tctgcaggtt taggttccca agaccaatca
3181 ggccagatgt cacaggactc gtgttggagg aaggtgctcc tgaaggtact gtctgttcta
3241 tactcgttaa gaggcctaca ggtgagatga tccccttggc agtgaggatg ggcacacatg
3301 catccatgaa aatacagggt aggaccgtcg gtggtcagat gggaatgctt ctcacagggg
3361 caaatgcaaa gaacatggat cttggcaccg gtcctggtga ctgcggttgt ccttacatct
3421 acaagcgtgg caacgacata gttgtcgcgg gtgtccacac cgcagcagcc cgggggggca
3481 acactgtcat ttgtgccact caaggacaag atggagaggc agtcctcgag ggaaatgaaa
3541 accttggcac ctactgtggt gctccaattc tgggccctgg caaagcgcct aaactcagca
3601 caaaaaccaa attttggcga tcatcaccag atgccctacc tcctggcaca tatgaacctg
3661 cttatctggg gggcaaggat cccagagttg aaaaggggcc ctccctacag caagttatga
3721 gagaccagct gaaaccattc actgagccca ggggcaaacc acctagacca gcagttttag
3781 aagaggctaa aaagacagtg atgaatgttc tagaacagac cattgaccct gctaaaccat
3841 ggacttactc acaagcatgt gcttcactgg acaagaccac ttctagtgga agcccccacc
3901 atgtcaggaa aaatgatcac tggaatgggg agtcttttac tggtccccta gcagatcaag
3961 catccaaagc caacctcatg tatgaacagg caaaacatgt gcagcccgtg tacacggccg
4021 cgctcaaaga tgagcttgtt aagactgata agatctacaa gaaaataaag aagagacttc
4081 tgtgggggtc agaccttggt acgatgatca ggtgtgctag ggcttttggc ggtcttatgg
4141 acagtatgaa agcgagttgt atagcccttc catgcagagt agggatgaac atgaatgagg
4201 atggccccat catatttgac aagcactcca agtataggta ccactatgat gctgactact
4261 ctaggtggga ctcgacccag caaaggagca ttctttccgc cgccatggag gtgatggtga
4321 ggttctctgc tgaaccagaa ttggcacaag tggtcgcaga ggaccttttg gcgcctagcc
4381 agctagatgt tggcgatttt gtcatctcag tccaggaggg cctgccatca ggagtcccat
4441 gtacgtcaca atggaattca atagcgcact ggattctaac tctgagcgca atggcagaag
4501 tgtcaggtct ctcaccagac gttgtccaag cccactcctg tttttcattt tatggcgacg
4561 atgagatcgt cagcactgac atcaaccttg accccatgaa attgacacag aaactcaggg
4621 agtatggtct ggtccccaca cggcctgata agactgaagg ccccctcgtt ataactgaag
4681 acctaaccgg cctgactttc ctgcgtagat cgattgcacg ggatccagct ggatggtttg
4741 gaaaattgga tcaagactca atcctcaggc aattgtattg gacaaggggg cccaaccatg
4801 aaaacccata cgagagcatg gttccccact cccagcgagc tactcagctc atggcccttc
4861 ttggtgaggc ttcattgcat ggtccccagt tttacaagag agtcagcaag atggttatca
4921 atgagattaa gagtggtggt ctggagtttt atgtgcccag acaagaggcc atgtttaggt
4981 ggatgagatt ctctgacctc agcacatggg agggcgatcg caatcttgct cccgagggtg
5041 tgaatgaaga tggcgtcgaa tgacgccgct ccatcaaatg atggtgctgc caacctcgta
5101 ccagaggcca acaatgaggt tatggcactt gaaccggtgg tgggagcttc aatcgcagct
5161 cctgttgtcg gtcaacagaa tataattgac ccctggatta gagaaaattt tgttcaagcg
5221 ccacagggcg agtttactgt ttcaccaagg aactcgcccg gtgaaatgct tctaaatctt
5281 gaattgggcc cagaacttaa cccctatttg agtcatttgt cccgcatgta caatgggtat
5341 gctggtggca tgcaggttca ggtggtccta gctgggaatg cgttcacagc tgggaagatc
5401 atctttgccg ctgtgccacc acacttccct gtggataata ttagtgcagc ccagataact
5461 atgtgccccc atgtgattgt tgatgtgaga cagcttgaac cagtgcttct acccctcccc
5521 gacataagga atagattctt ccattacaac caggaaaaca ccccccggat gagactcgtg
5581 gccatgctct acacgcctct aagggctaat tccggagagg atgtgttcac tgtgtcctgt
5641 agagttctga ctcgccccgc tccagatttt gaatttacat ttttagttcc accaactgtt
5701 gaatcaaaaa caaaaccctt tactctacct attctaaccc ttggtgagtt gtctaattcc
5761 cgttttcctg ctgctataga tatgctttac actgatccta atgaatcaat agttgttcag
5821 ccccaaaatg gtagatgtac tcttgacggc acgttgcaag gcacaacaca attggtccca
5881 acacagatct gtgcctttag aggtaccctg atcagccaga ctgcgagagc gaccgattca
5941 acagattccc cccagagagc ccgtgatcac ccgttacacg tccaggtcaa gaacctagat
6001 ggcacgcagt atgacccaac agatgacatc cctgcagtcc ttggggccat tgacttcaaa
6061 ggtacagtgt tcggagtggc aagtcagagg gacgtctctg gaacacaaga acagggccat
6121 tatgccaccc gggctcatga ggcacacatt gatacaactg acccaaagta tgcacctaaa
6181 ttaggcacaa ttctcatcaa atctgaatct actgatttca ccacaaatca gcccattagg
6241 ttcactccag tgggtatggg tgataacaat tggagacagt gggaattgcc tgactactct
6301 ggtagattga ctctgaatat gaatcttgcc cctgctgttt ccccatcctt ccctggcgaa
6361 cgaatccttt tctttaggtc tatagtacca tcagctggag gcttcgggtc tggctatata
6421 gactgtctca taccccagga atgggtgcaa cacttctacc aggaggcagc accttcacag
6481 tctgctgttg cactggttag gtacgtcaac cccgacactg ggcgtaacat ctttgaggcc
6541 aagttgcaca gagaagggtt cctcaccgtg gccaattctg gaaacaatcc tattgtggtt
6601 ccccctaatg gttattttag atttgaggct tgggttaacc aattctacac acttgccccc
6661 atgggatctg gacaggggcg tagaagagct cagtaatggc tggagccttc ttcgcagggt
6721 tagcaggcga tgtcgtgtcg aacggcatcg gttccctcat caatgcaggt gctaatgcag
6781 tcaatcaaaa ggttgagtat gattttaata agcaacttca gatggcatca tttaaacatg
6841 ataaggagat gttacaatca caggtgttgg caaccaaaca actgcagcag gaaatgatga
6901 acataaagca ggggatgttg accgctggcg gcttttcccc tgcggacgct gctagagggg
6961 ctgttaacgc tccaatgaca agaatactgg attggaatgg cacaagatat tgggcaccta
7021 atagcatgaa aaccacaagc tattcaggac aattctctag cagtcccgtc cacaggtctc
7081 ctgctcctct ccagcacact gccccaccaa aagggaagtt gcaaagtgat tctgctagtg
7141 tgtatagctc cccttccact gtttcttcac aatcaactca ttcaacagtg ttgtctgcag
7201 gaactgggtc gtccagatcc acccccacgt ccacagcaac ctccaccctg tctaggacca
7261 gcgactgggt tagaggacag aatgaaaggc ttagcccgtt tatggatggt gctctccaaa
7321 ctacttttgt cacaccacca tcgagcaaag cttcatcaaa tgggacagtc tcgaccgtgc
7381 ccaaagctgt tttggactcc tggactccta tgttcaacac acataggcag cctctcttcg
7441 cccatttgcg taggcgaggg gagtcacaaa tttagtgaaa agagtgatta ggtttccttt
7501 cccttcttct tcctcctttt ctctctttt
//