Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MW305599 | GII.6 | |
|
|---|---|---|---|
| GII.P7 |
ORF1: 1..5063
ORF2: 5044..6696
ORF3: 6696..7475
LOCUS MW305599 7529 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate Arg1261 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305599
VERSION MW305599.1
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JOURNAL Unpublished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="Arg1261"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Argentina"
/collection_date="1998"
/note="genotype: GII.6[GII.P7]"
gene <1..5063
/gene="ORF1"
CDS <1..5063
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59133.1"
/translation="LGSQNSVNDSINITPSNKEEVGAFSNIKVGFKRMLGAVPKGTKA
PSSDQHCPTVKIGPKTITVPPEPPNGEDTVQFDAKSETISGLPDLTTVQNEHENTPYT
VPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPPAAISLATIELT
PISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLSRRSI
SRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCTLGSLFSKPIKDLLGKLKPLNLL
HLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQGPEDLAVELVP
VVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAE
METLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLSTKSSSPDI
VGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKNIANT
MSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQELADTCPVTLNCD
RIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRIDFLVYAESPEIEKVKRDFPG
QPDMWKDYFKQDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHER
KDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKNVKTLEDLKVAL
RDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDHTSQTANEVSSALLRLRQARARYY
VSCFQDLVYTLIQVAGASFVVNRISKKFCWEKWVKPTETQETSEPEKEVAQGRWEIEP
KDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYLQDRDR
YYEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTGSDIRKRRPDDF
QPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPRG
VKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSILIKRPTGE
MIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDI
VVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPGKAPKLSTKTKF
WRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPPRPAVLEEA
KKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHAKKNDHWNGESFTGPLADQA
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..6696
/gene="ORF2"
CDS 5044..6696
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59134.1"
/translation="MKMASNDAAPSNDGAANLVPEANTEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVDNISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAAIDMLYTDPNESIVVQPQNGRCTLDGTLQGTTQ
LVPTQICAFRGTLISQTARAADSTDSPQRARDHPLHVQVKNLDGTQYDPTDDIPAVLG
AIDFKGTVFGVASQRDISGTQEQGHYATRAHEAHIDTTDPKYAPKLGTILIKSESSDF
NTNQPIRFTPVGMGDNNWRQWELPDYSGRLTLNMNLAPAVSPSFPGERILFFRSIVPS
AGGYGSGYIDCLIPQEWVQHFYQEAAPSQSAVALVRYVNPDTGRNIFEAKLHREGFLT
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="QPJ59135.1"
/translation="MAGAFFAGLAGDVVSNGIGSLINAGANAVNQKVEYDFNKQLQMA
SFKHDKEMLQSQVLATKQLQQEMMNIKQGMLTAGGFSPADAARGAVNAPMTKILDWNG
TRYWAPNSMKTTSYSGQFSSSPVHRSPAPPQHTAPSKSKLQSDSASVYSSPSTVSSQS
THSTVLYAGTGSSRSTSTSTATSTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSR
ASSNGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN
1 cccttggcag tcaaaactct gtcaatgaca gtatcaacat caccccttca aataaagaag
61 aggttggtgc attctccaac atcaaagttg gatttaagag aatgctgggt gccgtgccta
121 agggcaccaa agcacccagc agtgaccagc actgtcccac agttaagatc gggcccaaaa
181 caataacagt cccccctgaa cccccaaatg gtgaagacac tgtacagttt gatgcaaagt
241 cagaaactat aagtggacta ccggacttga caacagtgca aaatgaacac gaaaacaccc
301 catacaccgt ccctccgttg agtgagaggg aacataggcc agccactgag ccgcttcctg
361 gcacaatatt ggagatgtgg gatggtgaat tctaccacta ttccgtgtac gtcagcggcg
421 gcaaggctct aggggtccac aaacccccgg cagctataag cctcgcgacg atagagctca
481 cccccatatc tctatactgg aggcccgttt acacccccaa ctacctggtc tgcccagaca
541 cactgaaagg tctcgctggt gaaaagttcc cctacacggc cttcagtaac aattgttata
601 acttctgttg ctgggtactt gagctcaatg acacgtggct tagcagaaga agcatctcca
661 gaaccaccgg cttcttcaaa ccataccagt cttggaatag gaagcctctc ccaaccgttg
721 atgatggaaa aatcaaaaag gtggccaacg cgatcctctg tacgctcggc tcgctgttct
781 caaagccaat taaagacctg ttaggcaagc tcaaaccatt gaacttgcta cacttgctcg
841 cgtcatgtga ttggacgttt gcaggtatag tggagacagt catcttaatg gcggaactct
901 tcaacgtctt ttggactccg ccagatgtct ctaattttat agcctccctg ataggtgatt
961 ttgaattgca ggggcctgag gacttggcgg tggagcttgt tcctgtggtc atgggtggta
1021 tagggatggt tctcggcttc accgctgaga agataggtcg tatgctgtcg tccgctgcat
1081 caacactgcg ggcgtgcaaa gacctaggga actatgctct tgacatactc aaattagtca
1141 tgaagtggtt cttcccaaag aaagaggaga aagccgagat ggaaaccctg agggcgattg
1201 aggatgccgt cctagatatg gaggctatag gtaacaatca tctcacaacc ctcctcaagg
1261 ataaggacag tctcacggct ttcatgaaga ccctggacct agaagaggag aaggcaagga
1321 agctatccac caaatcatcc tcgccggaca tcgtcggcac tatcaatgcc atactggcta
1381 ggatagctgc tgctagatcc ctcctgcaca aggccaaaga agagatgttc agcaggatca
1441 gaccagtggt tgtcatgatc tcaggcagac ctggcattgg aaaaacccat atggcaaggc
1501 atttggctaa aaacatcgcc aacaccatga gtggcgacca gagagtcggg ctcgttccgc
1561 gcaacggggt cgaccactgg gacgcctaca ggggagagag ggtggtcttg tgggacgact
1621 atggcatggg gaaccctgtc aaagatgctt tgacactaca agaattggct gacacatgcc
1681 cagtcactct aaattgtgat aggatcgaga acaaggggaa gatgttcgac agtgatgtca
1741 tcataattac gaccaatcta gttaaccctg cgcctctcga ttatgtgaac ttcgaggcgt
1801 gctctagaag aattgacttc ttggtctatg cagaatcacc agaaattgag aaggttaaga
1861 gagatttccc tggtcaacct gacatgtgga aggattattt caaacaagac ttttcccaca
1921 taaagctgac cctagcccct cagggcggat ttgacaagaa tggtaacacc ccgcatggca
1981 agggtaccat gcgatccctc acccaggggt ccctgactgc aagagttgca ggccttgttc
2041 atgagaggaa ggatgagttc cagctacaag ggaacgacct ccagacatac aactttgaca
2101 ccaacagggt ctctgcattc aggaaactgg ctgcagacaa caagtatgga atcatggaaa
2161 caatgagagt gggtgcggca ctcaaaaatg tcaagacttt ggaagatctg aaagtcgcct
2221 tgagagatgt aaaattcaat gagtgtgaaa taatttacag gaactctaag tatcgagtct
2281 cttccaacgg caagggctct gtttctgttg acaaagttga ggatcacacg tctcagactg
2341 caaacgaggt gagctcagca ctcctcagac tcagacaggc aagggccaga tattatgtta
2401 gctgcttcca agacctcgtc tacactctca tacaggttgc tggggcatca ttcgttgtca
2461 acagaatctc caaaaagttc tgctgggaaa agtgggtgaa accaaccgag acccaagaaa
2521 cgagtgagcc cgaaaaggaa gtagctcaag gtagatggga gattgagccc aaggacacag
2581 aaccagaagg taagaagggc aagaacaaga aaggaagagg caagaaacac acagccttct
2641 ccagcaaagg cctgagtgat gaagagtatg acgagttcaa gagaatcaga gaagagagga
2701 acggaaagta ctccattgag gaatacctgc aagaccggga ccgctactat gaagaagtgg
2761 cagttgcccg agcaacagaa gaggactttt gtgaagagga agaggccaag ataagacaaa
2821 gaatcttccg cccgacaagg aagcaaagaa aggaggaaag gggggtgctt ggcttggtca
2881 ctggctcaga tatcagaaag aggagaccag acgatttcca accaaaaggc aacctgtggg
2941 cagatgacac taggagtgta gactacaatg agagacttga cttcgaggct cccccaagcg
3001 tctggtcaag aatagtccca ttgggtactg gttggggttt ctgggtttca tccaacctcc
3061 tgatcacaac aacacacgtc ctgcccaggg gggtcaagga actctttgga gttgaaatca
3121 aacaaattca aattcacaag tctggagagt tttgcaggtt taggttccca agaccaatca
3181 ggccagatgt tacagggctc gtgttggagg aaggtgctcc agaaggcact gtctgttcta
3241 tactcataaa gagacctaca ggtgagatga tccccctagc agtgaggatg ggcacgcatg
3301 catccatgaa aatacagggt aggaccgtcg gtggtcagat gggaatgctt ctcacagggg
3361 caaacgcgaa gaacatggat cttggcaccg gtcctggtga ctgcggttgc ccttacatct
3421 acaaacgtgg caatgacata gttgtcgcgg gtgtccacac cgcagcagcc cgggggggca
3481 acactgttat atgtgccact caaggacaag atggggaggc agtccttgaa ggaaatgaaa
3541 accttggtac ttactgtggt gccccaattt tgggccctgg caaagcgcct aaactcagca
3601 caaagactaa attttggcgc tcatcaccgg atgccctacc tcctggcaca tatgaacctg
3661 cttacctggg gggtaaggac cccagagtgg aaaaagggcc ctccctgcag caagttatga
3721 gagaccagct gaaacccttc acagagccca ggggcaagcc acctagacca gcagtcttag
3781 aagaagctaa aaagacagtg atgaacgtcc tagaacaaac cattgaccct gctaaaccat
3841 ggacctactc acaagcatgt gcttcactgg acaagaccac ttctagtggt agcccccacc
3901 atgccaagaa aaatgaccac tggaatgggg agtctttcac tggtcccctt gcggaccaag
3961 catccaaagc caacctcatg tatgaacagg caaaacatgt gcagcccgtg tacacggccg
4021 cactcaaaga tgagcttgtt aagactgata agatctacaa aaagataaag aagaggcttc
4081 tatgggggtc ggaccttggt acgatgatca ggtgtgccag ggcttttggt ggcctcatgg
4141 acagtatgaa agcaagttgc atagcccttc catgcagggt ggggatgaac atgaatgagg
4201 atggccctat catatttgac aaacactcca agtataggta tcactatgat gctgactatt
4261 ctaggtggga ttcaacccag caaaggagca ttctttccgc cgccatggag gtgatggtgc
4321 ggttctctgc tgaaccagaa ttggcacaag tggttgcaga ggaccttttg gcacccagcc
4381 agctagatgt cggcgacttt gtcatctcag tccaggaggg tctgccatca ggagtcccat
4441 gcacatcaca atggaattca atagcgcact ggatcttaac tctgagcgca atggcagaag
4501 tatcaggtct ctcaccagat gttgttcaag cccactcctg tttttcattt tatggcgacg
4561 atgagatcgt tagcactgac atcaaccttg accccatgaa attgacacag aaactcagag
4621 agtatggtct ggtccccacc cgacctgata agactgaagg tcccctcgtc ataactgaag
4681 acctcaccgg cctgacgttc ctgcgcagat cgattgcacg ggatccagct gggtggtttg
4741 gaaaattgga tcaagactca attctcaggc aattatactg gacaaggggg cccaatcatg
4801 agaacccata cgagagcatg gttccccatt ctcagcgagc cacacagctc atggcccttc
4861 ttggtgaggc ttcattgcat ggtccccagt tttacaagaa agttagcaag atggtcatta
4921 atgagattaa gagtggtggt ctggaatttt atgtgcccag acaagaggcc atgtttaggt
4981 ggatgagatt ctctgacctc agcacatggg agggcgatcg caatcttgct cccgagggtg
5041 tgaatgaaga tggcgtcgaa tgacgccgct ccatcgaatg atggtgctgc caacctcgta
5101 ccagaggcca acactgaggt tatggcactt gaaccggtgg tgggagcttc aatcgcagct
5161 cctgttgtcg gtcaacaaaa tataattgac ccctggatta gagaaaattt tgtccaagca
5221 ccacagggcg agtttactgt ttcaccaagg aattcgcccg gtgagatgct tctaaatctt
5281 gaattgggcc cagaacttaa cccctatttg agtcatttgt cccgcatgta caacggatat
5341 gctggtggca tgcaggttca ggtggtccta gctgggaatg cgttcacagc tgggaagatc
5401 atctttgccg ccgtgccacc acacttccct gtggataata ttagtgcagc ccagataact
5461 atgtgtcccc atgtgattgt tgatgtgaga cagcttgaac cagtgcttct gcccctcccc
5521 gatataagga acaggttctt ccattacaac caggagaaca ccccccgtat gagacttgtg
5581 gccatgctct acacgcctct aagggctaat tctggtgagg atgtgttcac tgtgtcctgt
5641 agggttctga ctcgccctgc tccagatttt gagtttacat tcttagtacc accaactgtt
5701 gaatcaaaaa caaaaccctt tactctacct attctaactc ttggtgagtt gtctaactcc
5761 cgttttccgg ctgctataga tatgctctac actgatccca atgaatcaat agttgttcag
5821 ccccaaaatg gtaggtgcac tcttgatggc acattgcaag gcacgacaca attggtccca
5881 acacagattt gtgcctttag aggtaccctg atcagccaga ccgcgagagc ggccgactca
5941 acagattccc cccagagagc ccgtgatcat ccattacacg tccaggtcaa gaacctagac
6001 ggcacacagt atgacccaac agatgatatt cctgcggtcc tgggggctat tgactttaaa
6061 ggtacagtgt ttggagtggc tagtcagagg gatatttctg gaacacaaga acagggccat
6121 tatgccaccc gagcccatga agcacacatt gacacaactg acccaaagta tgcacccaaa
6181 ttaggcacaa ttcttatcaa atctgaatct agtgatttca acacaaatca acccattagg
6241 ttcaccccag tgggcatggg tgacaacaat tggagacagt gggaattacc tgattattct
6301 ggtagactga ctttaaatat gaaccttgcc cccgctgttt ccccatcctt ccctggtgaa
6361 cgaatccttt tctttaggtc tatagtacca tcagctggag gctacgggtc tggctatata
6421 gactgtctca taccccagga atgggtgcaa cacttctacc aggaagcagc accttcgcaa
6481 tccgctgttg cactggttag gtacgttaac cccgacactg ggcgtaacat ctttgaggcc
6541 aagttgcaca gagaagggtt cctcaccgtg gccaattctg gaaacaatcc tattgtggtt
6601 ccccctaatg gttattttag atttgaggct tgggttaacc agttttacac acttgccccc
6661 atgggatctg gacaggggcg tagaagggcc cagtaatggc tggagccttc ttcgcaggat
6721 tagcaggtga tgtcgtgtcg aacggcatcg gttccctcat caatgcaggt gctaatgcag
6781 tcaatcaaaa ggttgaatat gacttcaata agcaacttca gatggcatca ttcaaacatg
6841 ataaggagat gttacaatca caggtgttgg caaccaaaca actgcagcag gaaatgatga
6901 acataaagca agggatgttg accgctggcg gcttctcccc tgcggacgct gctagagggg
6961 ctgttaacgc tccaatgaca aaaatactgg attggaatgg cacaagatat tgggcaccta
7021 acagcatgaa aactacaagc tattcaggac agttctctag tagccccgtc cacaggtctc
7081 ctgctcctcc ccagcatacc gctccatcaa aaagtaagtt gcaaagtgat tctgctagtg
7141 tgtatagctc cccctctact gtttcttcac aatcaactca ttcaacagtg ttgtatgcag
7201 gaactgggtc gtccagatcc acctccacgt ccacagcaac ctctaccctg tctagaacca
7261 gcgactgggt tagaggacag aatgaaagac ttagcccgtt tatggatggt gctctccaaa
7321 ctacttttgt cacaccacca tcaagcaggg cttcatcaaa tgggacggtc tcgaccgtgc
7381 ccaaagctgt tttggactcc tggactccta tgttcaatac acataggcag cctctcttcg
7441 cccatttgcg taggcgaggg gagtcacaaa tttagtgaaa agagtgatta ggctttcttt
7501 tcctttttct tcctcctttt ctctctttt
//