Typing tool
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Typing tool
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Complete norovirus genomes
| MW305719 | GII.14 | |
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| GII.P7 |
ORF1: 1..5063
ORF2: 5044..6654
ORF3: 6654..7448
LOCUS MW305719 7494 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate CMH-ST005-16 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305719
VERSION MW305719.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7494)
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JOURNAL Unpublished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 7494)
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..7494
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="CMH-ST005-16"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Thailand"
/collection_date="11-Jan-2016"
/note="genotype: GII.14[GII.P7]"
gene <1..5063
/gene="ORF1"
CDS <1..5063
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59493.1"
/translation="LGSQKSVNDSNNATPSNKEEVGTFSNIKVGFKKMLGAVPKGTKA
PSSDQHCPTVKIGPKTLTIPPEPPNGEDTVQFDAKSETVIGLPDLTTVQNEHENTPYT
VPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPPAAISLATIELT
PISLYWRPVYTPNYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLNRRCI
SRTTGFFKPYQSWNRKPLPTIDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLL
HLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQGPEDLAVELVP
VVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAE
METLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLSTKSSSPDI
VGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKSIANT
MSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQELADTCPVTLNCD
RIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEIEKVKRDFPG
QPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHER
KDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKSVKTLEDLKVAL
RDVKFNECEIIYKNSRYRVSSNGKGSVFVDKVEDNASQTVNEVHSALLRLRQARARYY
VSCFQDLVYTLIQVAGASFVVSRISRRFCWERWVKPTETQEVNEPEKEVAQGRWEIEP
KDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYLQDRDR
YYEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTGSDIRKRRPDDF
QPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKG
IKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSVLVKRPTGE
MIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDI
VVAGVHTAAARGGNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPGKAPKLSTKTKF
WRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLRPFTEPRGKPPRPAILEEA
KKTVMNVLEQTIDPAKPWSYSQACASLDKTTSSGSPHHVKKNDHWNGESFTGPLADQA
SKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIRCARAFGGL
MDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQRSILSAAME
VMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAHWILTL
SAMAEVSGLSPDVIQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREYGLVPTRPDKTE
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..6654
/gene="ORF2"
CDS 5044..6654
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59494.1"
/translation="MKMASNDATPSDDGAAGLVPEINNEVMALEPVAGASIAAPVVGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGELLLDLELGPELNPYLAHLARMYNGHAGG
MEVQIVLAGNAFTAGKILFAAIPPSFPYENLSPAQLTMCPHVIVDVRQLEPVLLPMPD
IRNVFYHYNQNNSPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFQFTFLVPP
TVESKTKNFTLPVLRVSEMTNSRFPVVLDQMYTSRNENIIVQPQNGRCTTDGELLGTT
ILQSVSICNFKGTMQAKLNEEPRYQLQLTNLDGSPIDPTDDMPAPLGTPDFQAMLYGV
ASQRSSIDNATRAHDAQIDTAGDTFAPKIGQVRFKSSSNDFDLHDPTKFTPIGVNVDD
QHPFRQWSLPNYGGHLALNNHLAPAVTPLFPGEQILFFRSYIPSAGGHTDGAMDCLLP
QEWIEHFYQEAAPSQSDIALVRFINPDTGRVLFEAKLHKQGFLTIAASGDHPIVMPTN
GYFRFEAWVNPFYTLAPVGTGSGRRRIQ"
gene 6654..7448
/gene="ORF3"
CDS 6654..7448
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59495.1"
/translation="MAGAFLAGLAGDVVTTSLGSLVGAGANAINQKVEYDFNRQLQEA
SFRHDKDMLKAQVAATAGLQQAMIDIKREALTAGGFSPADAARGAVKAPMTQILDWNG
SRYWAPNSMKTTGYSGTFASQGIRSSPHLSNQTPNVVKSTKPLPSISSSSSVYSSPST
APSQSTQSTTLSAGTGSSRPNTVSTKTSTLSRTSDWVRDQNEMLGPFMSGALQTAYVT
PPSSRASSQGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN
1 cccttggcag tcaaaaatct gtcaatgaca gtaataatgc caccccttct aacaaagaag
61 aggttggtac attctccaac attaaagttg gattcaagaa aatgctgggt gccgtgccca
121 aaggtaccaa ggcacccagc agtgatcagc attgccccac agttaagatc gggcctaaaa
181 cattgacaat cccccccgaa cccccaaatg gtgaagacac cgtacagttt gatgcaaaat
241 cagaaactgt aattgggcta ccggacttga caacggtgca aaatgaacac gaaaatactc
301 catacactgt ccccccattg agtgagaggg agcacagacc ggccactgaa ccacttcctg
361 gcacaatact ggagatgtgg gatggtgagt tttaccatta ctccgtgtac gtcagcgatg
421 gcaaagctct gggggtccac aaaccaccgg cggctataag tctcgcgacg atagaactca
481 cccccatatc actctactgg agacccgtct acacccccaa ctacttggtc tccccagaca
541 cattaaaggg cctcgctggt gagaagttcc cctacacggc cttcagcaac aactgttaca
601 acttctgctg ttgggtgctt gagctcaatg acacgtggct taacagaaga tgcatttcca
661 gaactaccgg cttctttaaa ccataccagt cttggaatag gaaacctctc ccaactattg
721 atgatggaaa gatcaaaaag gtggccaacg cgatcctctg tgcactcggc tcgctgtttt
781 caaaaccaat aaaggatcta ttaggtaaac tcaagccact gaatctacta cacttgctcg
841 cgtcctgtga ttggacgttt gcgggtatag tggagacagt catcttaatg gcggagcttt
901 ttaatgtctt ctggaccccg ccagatgtct ctaattttat agcctccctg ataggtgatt
961 ttgaattgca aggccctgaa gacttggctg tggagctcgt tcccgtggtc atgggtggca
1021 tagggatggt tctcggcttc accgctgaga agataggccg catgctgtcg tccgctgcat
1081 caacattacg ggcgtgcaaa gacctaggga actatgccct tgacatactc aaattggtca
1141 tgaaatggtt cttcccaaag aaggaagaga aagctgagat ggagaccttg agggcgattg
1201 aagatgctgt ccttgatatg gaagctatag ggaataacca cctcacaacc cttctcaagg
1261 acaaagacag cctcacggct ttcatgaaaa ccctggatct agaagaggag aaagcgagga
1321 aactgtccac taaatcatct tcaccggaca tagtcggcac cattaacgcc atactagcta
1381 ggatagctgc tgctagatcc ctactacata aggccaaaga ggagatgttc agcaggatca
1441 gaccagtagt cgtcatgatc tcaggcagac ctggcattgg gaaaacccac atggcaaggc
1501 atctggctaa gagcatcgcc aacaccatga gtggcgatca gagggtcgga ctcgtcccac
1561 gcaatggtgt cgatcactgg gatgcctaca ggggagagag agtggtcttg tgggatgact
1621 acggtatggg gagccctgtc aaagacgccc tgacactgca agaattggcc gacacatgtc
1681 cagtcacttt aaattgtgat aggattgaga ataaagggaa gatgtttgat agtgatgtta
1741 tcataatcac gaccaaccta gtcaaccccg cgcccctcga ctatgtgaac ttcgaggcgt
1801 gttccaggag agttgacttc ctggtctatg cagagtcacc agagattgaa aaggtcaaga
1861 gagatttccc tggccagcct gacatgtgga aagatcattt taagccagac ttttcccaca
1921 ttaagttgac tctagcccct cagggtggat ttgataaaaa tggcaacacc ccacacggca
1981 agggcactat gcggtcccta acccaggggt ccctaaccgc gagggttgca ggccttgtcc
2041 atgagaggaa ggacgagttc cagctccaag gaaatgacct tcaaacatac aattttgaca
2101 ccaacagagt ctccgcgttt agaaaattgg ccgcagacaa caagtatggg atcatggaga
2161 cgatgagagt tggcgcagcg ctcaagagtg tgaagacctt agaagatctt aaagttgcat
2221 tgagggatgt aaaattcaat gagtgtgaaa taatttacaa gaattctagg taccgagtct
2281 cttccaacgg taaaggctca gtttttgttg acaaagttga agacaatgct tcccagactg
2341 tgaacgaggt gcactcagca ctcctcagac tcaggcaggc gagggccaga tactacgtta
2401 gctgcttcca agacctcgtc tacactctca tacaggttgc cggggcatca tttgttgtca
2461 gtaggatctc cagaaggttc tgctgggaaa ggtgggtcaa accgaccgag acacaggagg
2521 tgaatgagcc cgaaaaggaa gtggcccaag gcagatggga aattgaaccc aaggacacag
2581 aaccagaagg caagaagggt aagaacaaga aaggaagggg caagaaacac acagccttct
2641 ctagcaaagg tctgagtgat gaagagtatg acgagttcaa gaggatcagg gaagaaagaa
2701 atggaaagta ctccattgag gaatacctgc aggaccgaga ccgctattat gaagaagtag
2761 cagtcgctcg ggcgacagag gaggacttct gtgaagagga agaggccaag ataagacaga
2821 gaatcttccg cccgacaagg aaacagagga aggaggaaag gggcgtgctt ggcttggtca
2881 ctggctcaga catcagaaag agaagaccag acgattttca accaaaaggc aatctatggg
2941 cagatgacac cagaagtgtg gattacaatg agaggcttga ttttgaagca cccccgagtg
3001 tctggtcaag aatagtccca ttaggcactg gttgggggtt ttgggtttca tccaaccttc
3061 tgatcacaac aacacacgtc ctgcctaaag ggattaagga gctctttgga gttgaaatta
3121 aacaaatcca aatccataag tctggagagt tttgcaggtt tagattccca agacctatca
3181 ggccagatgt cacagggctc gtgctggagg agggcgcccc agagggcact gtctgttctg
3241 tactcgtgaa aagacccaca ggtgaaatga tcccccttgc agtgaggatg ggcacacacg
3301 catccatgaa aatacagggc aggactgttg gtggccagat gggaatgctc ctcacaggag
3361 caaacgcaaa gaacatggac cttggcaccg gccccggtga ctgcggttgc ccctacatct
3421 acaagcgtgg caacgacatt gttgttgcgg gcgtccacac tgcagcagcc cggggaggca
3481 acactgtaat atgtgctacc caagggcaag atggggaagc agtccttgag ggaaatgagg
3541 accttggcac ctactgtggc gccccaattt tgggccctgg caaggcgcct aaactcagta
3601 cgaagaccaa gttttggcgc tcatcaccag atgccctgcc acctggcaca tatgaacctg
3661 cttacctagg aggcaaagac cctagagtgg aaaaaggtcc atccctgcag caagtcatga
3721 gagaccagtt gaggcccttc acagaaccca gaggcaaacc gcctagacct gcaattttag
3781 aggaagccaa aaagacagtg atgaatgttc tagagcaaac cattgacccc gccaagccat
3841 ggtcctattc gcaggcatgt gcctcattgg ataaaaccac ctctagtggt agtccccacc
3901 acgttaagaa aaatgaccac tggaatgggg agtccttcac tggtcccctt gcagaccagg
3961 cttctaaagc caacctcatg tatgagcagg ctaaacatgt gcagcccgtg tatacggctg
4021 cgcttaaaga tgagcttgtt aagactgaca agatctacaa gaagataaag aaaaggctcc
4081 tatgggggtc agaccttggc acaatgatca ggtgcgccag ggcttttggc ggtcttatgg
4141 acagcatgaa ggcaagttgc atagctcttc cttgcagggt aggaatgaac atgaatgaag
4201 atggccccat catatttgac aaacactcta agtacaggta ccactatgat gctgactatt
4261 ctaggtggga ctcaacccaa caaaggagca tcctctctgc cgccatggaa gtgatggtgc
4321 ggttttctgc tgaaccagaa ttggcacaag tggttgcaga ggaccttttg gcacctagcc
4381 agcttgatgt cggcgacttt gtcatctcag tccaggaagg cctgccatca ggagtcccat
4441 gcacatcgca atggaattca atagcacact ggatactcac tttgagtgca atggcagaag
4501 tgtcaggcct ttcaccagat gttatccaag ctcactcttg tttttcattt tatggggacg
4561 acgagatcgt cagcactgat atcaacctcg acccaatgaa gttaacacaa aaactcaggg
4621 agtatggcct ggttcccacc cggcctgaca aaactgaagg tcccctcgtc ataactgaag
4681 acctcaccgg cctgacgttc cttcgtaggt cgattgctcg ggacccagct ggctggtttg
4741 gaaaactaga ccaggattca atcctcaggc aactgtactg gacaaggggg cctaaccatg
4801 agaacccgta cgagagcatg gttcctcatt cccagcgggc cacacaactc atggcccttc
4861 ttggcgaggc ctcgctgcac ggtcctcagt tttacaagaa agtcagcaaa atggtcatca
4921 atgaaattaa gagtggtggt ctggagtttt acgtgcccag acaagaggcc atgttcagat
4981 ggatgagatt ctctgacctc agcacgtggg agggcgatcg caatcttgct cccgaaggtg
5041 tgaatgaaga tggcgtcgaa tgacgctact ccatctgatg atggtgcagc cggcctcgta
5101 ccagagatca acaatgaggt tatggctctc gaacccgtcg ctggggcctc cattgcagcc
5161 cccgtagtcg gtcaacagaa tataattgat ccctggatta gaaacaattt tgtacaagcc
5221 cctgctggtg aatttacagt ttcccctaga aactctcctg gagaacttct acttgatttg
5281 gaattgggtc ctgaactcaa cccctatctt gcacatttgg ctaggatgta caatgggcac
5341 gcaggaggaa tggaagtgca gatagtactg gctgggaatg cgttcacagc tggtaagatc
5401 ctatttgccg ccatcccacc tagcttccct tatgaaaatt tgtcacccgc ccaattgact
5461 atgtgccccc atgtgatagt ggatgtgaga caattagaac cagtgctttt gccaatgcca
5521 gatataagaa atgttttcta tcattataat cagaataaca gtcccaaact caggcttgta
5581 gctatgcttt atactcctct gagggctaac aattcaggtg atgatgtgtt cacggtgtct
5641 tgccgcgttt taacgcgccc ttctccagat ttccagttca ctttcctggt cccacctaca
5701 gttgagtcta aaactaagaa cttcaccctc cccgttctca gagtttcaga gatgacaaac
5761 tcaaggttcc ccgttgtctt ggaccaaatg tacacaagca ggaatgaaaa catcattgtc
5821 caaccccaaa acggcagatg cacaactgat ggtgagctgc ttggtaccac tatcttacaa
5881 tctgtgtcta tttgcaactt caaaggaaca atgcaggcaa agctgaatga agaaccacga
5941 taccaattgc aactcaccaa cttggatggt tcacccatag atccaacaga tgatatgcct
6001 gcccctcttg gcacaccaga cttccaggcc atgttatatg gtgttgcaag ccaacgctct
6061 tccatagaca atgccaccag ggcacatgat gcacagattg acactgcggg tgacacattc
6121 gccccgaaaa ttggccaggt tcgatttaaa tcaagctcca atgattttga tctacatgac
6181 cctacaaaat tcacacctat tggtgtcaat gtggatgacc agcacccttt tagacagtgg
6241 tccctgccaa actacggtgg tcaccttgcc ctgaacaacc atttggcccc agctgtgaca
6301 ccgctcttcc ctggcgagca aatcttgttc tttaggtcat acattccaag cgccggaggc
6361 cacacagacg gtgctatgga ctgtttgctg ccccaagagt ggatagagca cttctaccag
6421 gaggcggctc cttcccaatc tgacatcgca ctggtgaggt tcatcaaccc tgacacagga
6481 agagtgctct ttgaagctaa attgcacaaa caaggtttcc tcacaattgc agcatctgga
6541 gaccatccta ttgtgatgcc cactaatggt tactttaggt ttgaagcttg ggtcaaccct
6601 ttctatactc tcgcccccgt gggaactggg tctgggcgca ggaggattca ataatggctg
6661 gagctttcct tgcaggcttg gcaggtgacg ttgtgactac cagcttgggc tcacttgtgg
6721 gtgctggagc caacgccatc aaccaaaaag tggagtatga cttcaacagg caactccagg
6781 aggcatcttt tagacatgat aaggatatgc tcaaagccca ggttgcagca acagcaggcc
6841 ttcaacaggc catgatagac atcaagcggg aggcattgac tgcaggcggc ttttcccccg
6901 ctgatgctgc aagaggtgca gttaaagcac ctatgacgca gatccttgat tggaatggtt
6961 ctagatactg ggctcctaac tccatgaaga caactggcta ttcaggcaca tttgcttccc
7021 aaggcattag aagttcccct catctgtcta atcaaacccc aaatgttgtt aaatctacta
7081 aacctttacc atctatatct agttcttcta gtgtgtatag ttctccttct actgccccct
7141 cacaatcaac acaatcaaca acgctgtctg cagggacagg gtcttccaga cctaacactg
7201 tgtccacaaa gacttccaca ttgtcgagga caagtgattg ggtcagagat caaaatgaga
7261 tgcttggccc gttcatgagt ggtgcactcc aaactgctta tgtcacacca ccatcgagca
7321 gggcctcatc acaagggacg gtctcgaccg tacccaaggc tgttttggac tcctggactc
7381 ccatgtttaa cacccacagg cagcctctct tcgcccactt gcgtaggcga ggggagtcac
7441 agatttagtg aaaaggatga ttagggtttc ttcctttccc ctttttattc tttt
//