Typing tool
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Typing tool
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Complete norovirus genomes
| MW305735 | GII.6 | |
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| GII.P7 |
ORF1: 1..5063
ORF2: 5044..6687
ORF3: 6687..7463
LOCUS MW305735 7515 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate SSM nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MW305735
VERSION MW305735.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7515)
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JOURNAL Unpublished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 7515)
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..7515
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="SSM"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="10-Dec-2019"
/note="genotype: GII.6[GII.P7]"
gene <1..5063
/gene="ORF1"
CDS <1..5063
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59541.1"
/translation="FGSQNSVNDSNNTAPSSKEEAGAFSNIKVGFKKMLGAVPKGTKA
PSSDQHCPSVKIGAKTLTVPPEPPNGEDTVQFDARSETVRGLPDLTTVQNEHENTPYT
VPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPPAAISLATIELT
PISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLSRRSI
SRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLL
HLLASCDWTFAGIVETVILMAELFNIFWTPPDVSSFIASLIGDFELQGPEDLAVELVP
VVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAE
METLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARRLSTKSSSPDI
VGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKSIANT
MSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQELADTCPVTLNCD
RIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEIEKVKRDFPG
QPDMWKDHFKQDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHER
RDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGTALKSVKTLEDLKVAL
RDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDQTSQTANEVGAALLRLRQARARYY
VSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETSESEKEVAQGRWEIEP
KDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYLQDRDR
YYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTGSDIRKRRPDDF
QPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKG
INELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSILVKRPTGE
MIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDI
VVAGVHTAAARGGNTVICATQGLDGEAVLEGNENHGTYCGAPILGPGKAPKLSTKTKF
WRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPPRPAVLEEA
KKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNGESFTGPLADQA
SKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIRCARAFGGL
MDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQRSILSAAME
VMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAHWILTL
SAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREYGLVPTRPDKTE
GPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHENPYESMVPHS
QRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRWMRFSDLST
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..6687
/gene="ORF2"
CDS 5044..6687
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59542.1"
/translation="MKMASNDAAPSNDGAANLVPEATNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVDNISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEAIVVQPQNGRCTLDGTLQGTTQ
LVPTQICSFRGTLISQTSRSADSTDSAPRVRNHPLHVQLKNLDGTPYDPTDEVPAVLG
AIDFKGTVFGVASQRNTTGSSIGATRAHEVHIDTTNPRYTPKLGSVLMYSESADFDDG
QPTRFNPIGMGADDWHQWELPEYSGHLTLNMNLAPAVAPAFPGERILFFRSVVPSAGG
YGSGHIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRVQ"
gene 6687..7463
/gene="ORF3"
CDS 6687..7463
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59543.1"
/translation="MAGAFLAGLAGDAITSGVGSLINAGANAINQKVEYDFNKQLQLA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLSAGGFSPTDAARGAVNAPMTKILDWNG
TRYFAPNSMKTTSYSGQFSSNPVHRQPTLTRSESPKIKVNSDSASVYSSATTTPSQST
HSTALTAGSSSSRTTSSSAAASTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSKA
SSYGSVSTVPKAVLDSWTPMFNTHRQPLFAHVRRRGESQI"
ORIGIN
1 cctttggcag ccaaaactct gtcaatgaca gtaacaacac cgccccttct agtaaggaag
61 aggctggtgc attctccaac atcaaagttg gttttaagaa aatgctgggt gccgttccca
121 aggggacaaa agcacccagc agtgatcaac actgcccctc agttaagatc ggggccaaga
181 cattaacagt tccccctgag cccccaaacg gtgaagacac cgtgcagttt gatgcgaggt
241 cagaaactgt gcgcgggcta ccagacttga caacggtgca gaatgaacat gaaaacacac
301 catacactgt ccccccattg agtgaaaggg agcacagacc agccactgaa ccgcttcctg
361 gcacaatact cgagatgtgg gatggtgaat tctaccatta ctctgtgtac gtcagcggtg
421 gcaaagccct aggggtccac aagccccctg cagcgataag cctcgcaacg atagagctca
481 cacccatatc tctctattgg aggcccgttt acacccccaa ctatctggtc tgtccagaca
541 cgttgaaggg cctcgctggt gagaagttcc cctatacggc cttcagcaac aactgttaca
601 acttctgttg ctgggtgctt gagctcaatg acacgtggct tagcaggaga agcatctcta
661 ggaccaccgg cttcttcaaa ccataccagt cttggaatag gaaacccctt ccaaccgttg
721 atgatggaaa gatcaaaaag gtggccaacg caattctttg cgcgcttgga tcactgtttt
781 caaaaccaat taaggaccta ttgggcaaac ttaaaccatt gaacttgcta cacttgctcg
841 catcatgtga ctggacgttt gcaggtatag tagagacagt catcctaatg gcggaacttt
901 tcaacatctt ctggacaccg ccagatgttt ccagcttcat agcctctctg ataggtgatt
961 ttgaactgca aggacctgag gaccttgctg tggagcttgt ccccgtggtc atgggtggca
1021 taggaatggt tctcggcttt actgctgaga agataggccg catgctatcg tccgctgcat
1081 caacactacg ggcatgcaaa gacttgggga attatgctct tgacatactg aaactggtta
1141 tgaagtggtt cttcccaaag aaagaagaga aagccgagat ggaaacccta agggcgattg
1201 aggatgccgt cctggacatg gaagctatag gaaataacca cctcacaacc ctcctcaagg
1261 acaaggatag cctcacggct ttcatgaaga ctctagatct agaagaggag aaggcaagga
1321 ggctgtccac caaatcatcc tcgccagaca tcgtcggcac tattaatgcc atactggcca
1381 gaatagctgc tgccaggtcc ctcttacata aggctaaaga agaaatgttt agcaggatca
1441 gacccgtggt tgtcatgatc tcgggtagac ctggtattgg caagacccac atggcaagac
1501 acttggctaa gagtatcgcc aacaccatga gcggcgacca gagggtggga ctcgtcccac
1561 gcaacggggt tgatcattgg gacgcctaca ggggagagag ggtggttctg tgggatgatt
1621 atggcatggg aaaccctgtc aaagatgccc taacactgca agagttggcc gacacctgcc
1681 cagtgactct aaactgtgat aggattgaga acaaagggaa gatgtttgac agtgatgtca
1741 tcataattac gaccaattta gtcaacccag cgcccctcga ttatgtaaac ttcgaggcgt
1801 gctccagaag ggtcgacttc ctggtctatg cagaatcacc agaaatcgag aaggttaaga
1861 gagacttccc cggccaacct gacatgtgga aagaccattt taagcaagac ttttcccaca
1921 taaagctgac tctagcccca cagggtggat ttgacaagaa cggcaacact ccgcatggta
1981 agggcaccat gcgatcccta acccaggggt ccctgactgc aagggttgca ggccttgttc
2041 atgagaggag agacgagttc cagctccagg ggaacgacct ccaaacatac aactttgaca
2101 ccaacagggt ctctgcgttt aggaagctgg ccgcagacaa caagtacggg atcatggaga
2161 ctatgagagt gggcacagcg cttaagagtg tcaagacctt agaagacctg aaagttgcac
2221 tgagggatgt gaagttcaat gagtgtgaga taatttacag aaactccaaa taccgagtct
2281 cttccaatgg taaaggttct gtctctgttg acaaagttga ggaccaaaca tcccagactg
2341 caaacgaagt gggcgcagca ctcctcagac tcaggcaggc aagagccaga tactatgtca
2401 gttgcttcca agatctcgtt tacactctaa tacaggtcgc cggagcatca ttcgttgtca
2461 acaggatctc caaaaggttc tgctgggaga gatgggtcaa accaaccgag acccaggaaa
2521 cgagtgaatc cgaaaaggag gtggcccaag gcagatggga gattgagcca aaggacacag
2581 aaccagaagg taagaagggc aagaacaaga aaggaagagg caagaaacac acagccttct
2641 ccagtaaagg cctgagtgat gaggagtatg acgagtttaa gagaattaga gaagaaagga
2701 acggaaaata ctccattgag gaatacctgc aagaccggga ccgctactat gaggaagtgg
2761 cagttgcccg ggcgacagag gaggacttct gtgaagagga ggaggccaag ataagacaaa
2821 gaatctttcg ccccacaaag aaacagagga aggaagaaag gggggtgctt ggtttggtca
2881 ctggctcaga catcaggaag agaaggccag acgattttca accgaagggc aacctgtggg
2941 cagacgacac caggagtgtg gactacaacg agagacttga ttttgaggct cccccgagtg
3001 tctggtcaag aatagtccca ctgggcactg gctggggctt ctgggtctca tcaaaccttc
3061 tgatcacaac gacgcacgtc ctacctaagg ggattaatga actctttgga gttgagatca
3121 aacagattca aattcataag tccggagagt tctgcaggtt cagattcccg agaccaatta
3181 gaccagatgt cacagggctc gtgttggagg aaggtgctcc agaaggcact gtctgctcca
3241 tactcgtaaa gagacctaca ggtgagatga tccccctggc agtgaggatg ggcacacatg
3301 catccatgaa gatacagggt aggaccgttg gtggccagat gggaatgctc ctcacagggg
3361 caaatgcaaa gaacatggac cttggcactg gtcctggtga ctgcggttgc ccttacatct
3421 acaaacgtgg caatgatata gttgtcgcgg gtgtccacac cgcagcagcc cggggaggca
3481 acactgtcat ctgtgccact caagggctag atggggaagc agtccttgag ggaaatgaaa
3541 accatggcac ttactgcggt gccccaatct tgggtccagg caaggcgccc aaacttagta
3601 cgaagaccaa gttctggcgc tcatcaccag atgctttgcc gccaggcact tatgagcctg
3661 cctacttggg aggcaaggac cccagagtgg agaaaggacc atccctgcag caagtcatga
3721 gggaccagct aaaacctttc acagaaccca ggggcaagcc acccagacct gcagttttag
3781 aagaagccaa aaagacagta atgaatgttt tagagcaaac cattgaccct gctaagccgt
3841 ggacctattc ccaagcatgt gcctcactgg acaagaccac ctctagtggt agcccccatc
3901 atgtcaggaa aaatgaccat tggaatgggg aatccttcac tggccccctc gcagaccaag
3961 catccaaagc caacctcatg tatgagcagg ccaaacatgt gcagcccgtg tacacggccg
4021 cacttaaaga tgagctagtc aaaactgaca agatctacaa gaagataaag aaaaggctct
4081 tatgggggtc ggatcttggt acaatgatca ggtgtgccag ggcctttggc ggtctcatgg
4141 atagcatgaa ggcaagctgc atagccctcc catgcagggt aggaatgaac atgaatgagg
4201 atggacccat catatttgac aaacattcta agtataggta tcactatgat gctgactatt
4261 ccagatggga ctcaacccaa caaaggagca ttctctcggc cgctatggaa gtgatggtgc
4321 ggttctctgc tgaaccagag ctggcgcaag tggttgcaga ggacctcctg gcacccagcc
4381 aattagatgt tggcgatttc gtcatctcag tccaggaggg tctaccatca ggggtcccat
4441 gcacatcaca atggaattca atagcacatt ggatcctaac tttgagtgca atggcagaag
4501 tatcgggtct ttcaccagat gttgttcaag cccactcctg tttctcattc tacggtgatg
4561 atgagatcgt cagcactgac atcaaccttg atcccatgaa gttgacacaa aagctcagag
4621 agtatggcct ggtccccact cgacctgaca aaactgaggg tcccctcgta ataactgaag
4681 acctcaccgg cctaacgttc ctgcgcaggt cgattgcacg ggacccagct gggtggtttg
4741 gaaagttgga ccaagactca atcctcagac agttgtactg gacaaggggc cccaaccatg
4801 agaacccata tgagagcatg gtcccccact cccaacgggc cacacagctc atggcccttc
4861 tcggtgaggc ttcactgcat ggcccccagt tttacaagaa ggttagcaag atggtcatta
4921 atgagatcaa aagtggtggt ctggaattct atgtgcccag acaagaggcc atgttcagat
4981 ggatgagatt ctctgacctc agcacatggg agggcgatcg caatcttgct cccgagggtg
5041 tgaatgaaga tggcgtcgaa tgacgctgct ccatcgaatg atggtgctgc caacctcgta
5101 ccagaggcca ccaatgaggt tatggcactt gagccggtgg tgggagcctc aattgctgct
5161 cctgtcgtcg gccaacaaaa tataattgac ccctggatta gagaaaattt tgttcaggca
5221 ccacagggtg agtttactgt ttcaccaagg aactcacctg gtgagatgct tctaaatctt
5281 gaattaggcc ctgagctaaa cccttatctg agtcacttgt cccgcatgta taacggctat
5341 gctggtggta tgcaggttca ggtggtccta gctgggaatg cgttcacagc tggtaaaatc
5401 atctttgccg ccgtcccacc acatttccct gttgataaca ttagtgcagc tcaaatcaca
5461 atgtgccccc atgtaattgt tgatgtaaga cagcttgagc cagttctttt gcccctccct
5521 gacataagga atagattctt tcattacaat caggaaaata ccccccggat gagacttgtg
5581 gctatgttgt acacacccct tagagcaaat tctggtgagg atgtattcac ggtgtcttgc
5641 agagttctga cccgccctgc tcccgacttt gagttcacgt ttctggtgcc accaactgtg
5701 gagtcaaaga ctaagccctt tacacttccc attctgactc ttggggagct gtccaactcc
5761 agattccccg ctccaataga catgctgtat actgacccta atgaggcaat tgtggtgcaa
5821 ccacaaaatg gtaggtgcac tctagatgga acacttcagg ggaccaccca actggtaccc
5881 acccaaattt gctccttcag gggcacgcta attagccaga cgtcgaggtc tgcagattca
5941 acagattcag ccccacgggt gaggaaccac cctctccacg ttcagctgaa gaacctcgat
6001 gggacaccat atgatccaac agatgaggtg ccggcagttt tgggtgccat agatttcaaa
6061 ggaaccgtat ttggggtcgc tagtcaaaga aacaccacag ggagctctat aggagcaacc
6121 cgcgcccatg aagtgcacat agacaccaca aaccccagat acaccccaaa gttaggctct
6181 gtgttgatgt attctgagtc tgctgatttt gatgatggac agcctacccg cttcaacccc
6241 attggaatgg gagccgatga ttggcaccaa tgggaattgc ccgaatattc tggtcatctt
6301 actcttaaca tgaacttggc tcccgcagtt gcccctgcct tccctggtga gcgcattctc
6361 ttcttcagat cagtggtacc atccgctggt ggctatggat caggtcacat agattgcctc
6421 attccacagg aatgggttca gcatttctac caggaggccg ctccatcaca gtctgcggtg
6481 gctcttatca gatatgtcaa ccctgacact ggaagaaaca tctttgaggc aaaactgcat
6541 agagaagggt tcatcactgt ggcaaattct ggaaacaacc ccatagttgt gcccccaaat
6601 ggctacttca ggttcgaggc ctgggtcaat caattctaca cactcacccc catgggaact
6661 ggacaggggc gcagaagagt tcaataatgg caggagcttt cttagctgga ttggcaggtg
6721 acgccataac aagtggtgtc gggtccctaa tcaatgctgg ggccaatgca attaaccaaa
6781 aggtagagta tgattttaat aaacagctcc aattggcatc cttcaaacat gacaaagaga
6841 tgttgcagtc acaagtgttg gccactaaac agctccagca agagatgatg aacataaggc
6901 aaggggtctt gtccgctggc ggcttttccc ctacagatgc cgcaagaggt gctgtaaatg
6961 caccgatgac aaaaattttg gattggaatg ggactaggta ctttgctcca aacagtatga
7021 agacaaccag ttactcgggc cagttttcca gcaaccctgt gcataggcag cccactctaa
7081 cccgttctga atccccaaaa atcaaggtta atagtgattc tgctagtgtg tatagttctg
7141 caactactac tccttcacaa tcaacccatt caacggcttt gactgcgggg tctagctcat
7201 ctaggacaac atcctcttct gcagcagctt ccaccctatc taggaccagc gactgggtga
7261 gaggacaaaa tgagaggctt agcccgttta tggatggtgc tcttcaaaca acttttgtca
7321 caccaccatc gagcaaggct tcatcatatg ggtcggtctc aaccgttccc aaagctgttt
7381 tggactcctg gactcctatg tttaataccc atagacagcc tctcttcgct catgttcgca
7441 ggcgagggga gtcacagatt tagtgaaaag attgattagg ttttctttct ttcttcttct
7501 ccttttcttt ctttt
//