Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MW305576 | GII.14 | |
|
|---|---|---|---|
| GII.P7 |
ORF1: 1..5063
ORF2: 5044..6660
ORF3: 6660..7454
LOCUS MW305576 7501 bp RNA linear VRL 18-JUL-2024
DEFINITION Norovirus GII isolate HK74 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MW305576
VERSION MW305576.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7501)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A.U.A., Ford-Siltz,L.A., Green,K.Y.,
Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N.,
Ushijima,H. and Parra,G.I.
TITLE Genome-wide analyses of human noroviruses provide insights on
evolutionary dynamics and evidence of coexisting viral populations
evolving under recombination constraints
JOURNAL PLoS Pathog 17 (7), e1009744 (2021)
PUBMED 34255807
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7501)
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..7501
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="HK74"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Hong Kong"
/collection_date="10-Jan-1978"
/note="genotype: GII.14[GII.P7]"
gene <1..5063
/gene="ORF1"
CDS <1..5063
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59064.1"
/translation="FGSQNSVNDSTNTTPSNREEVGAFSNIKVGFKKMLGAVPKGTKT
PSSDQHCPTVKIGPKTLVIPPEPPNGEDVVQFDAKLETVRGLPDLTTVQNEHENTPYT
VPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPPAAISLATIELT
PISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLSRRCI
SRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLL
HLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLVGDFELQGPEDLAVELVP
VVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAE
METLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLSTKSSSPDI
VGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKSIANT
MSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQELADTCPVTLNCD
RIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEIEKVKRDFPG
QPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHER
RDEFQLQGSDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKNVKTLEDLKVAL
RDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDHTSQTANEVSSALLRLRQARARYY
VSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETSEPEKETAQGRWEIEP
KDAEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYLQDRDR
YYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLITGSDIRKRRPDDF
QPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKG
LKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSILVKRPTGE
MIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDI
VVAGVHTAAARGGNTVICATQGQDGEAVLEGNENHGTYCGAPILGPGRAPKLSTKTKF
WRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPPRPAVLEEA
KKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNGESFTGPLADQA
SKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIRCARAFGGL
MDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQRSILSAAME
VMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAHWILTL
SAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPEKLTQKLREYGLVPTRPDKTE
GPLVITEDLAGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHENPYESMVPHS
QRATQLMALLGEASLHGPQFYKKVSKMVISEIKSGGLEFYVPRQEAMFRWMRFSDLST
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..6660
/gene="ORF2"
CDS 5044..6660
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59065.1"
/translation="MKMASNDATPSDDGAAGLVPEINNEVMALEPVAGASIAAPVVGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGELLLDLELGPELNPYLAHLARMYNGHAGG
MEVQIVLAGNAFTAGKILFAAIPPSFPYENLSPAQLTMCPHVIVDVRQLEPVLLPMPD
IRNVFYHYNQNNSPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFQFTFLVPP
TVESKTKNFTLPVLRVSEMTNSRFPVVLDQMYTSRNENIIVQPQNGRCTTDGELLGTT
ILQSVSICNFKGTMQAELSDQPRYQYQLQLTNLDGSPIDPTDDVPAPLGTPDFQAMLY
GVASQRSSRDNATRAHDAQIDTAGDTFAPKIGQVRFKSSSNDFDLHDPTKFTPIGVNV
DDQHPFRQWSLPNYGGHLALNNHLAPAVTPLFPGEQILFFRSYIPSAGGHTDGAMDCL
LPQEWIEHFYQESAPSQSDIALVRFINPDTGRVLFEAKLHKQGFLTIAASGDHPIVMP
TNGYFRFEAWVNPFYTLAPVGTGSGRRRIQ"
gene 6660..7454
/gene="ORF3"
CDS 6660..7454
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59066.1"
/translation="MAGAFLAGLAGDVVTSSLGSLVGAGANAINQKVEYDFNRQLQEA
SFRHDKDMLKAQVAATAGLQQAMIDIKREALTAGGFSPADAARGAVRAPMTQILDWNG
SRYWAPNSMRTTGYSGTFVSQGVKNLPHLSSQTPSISRPSRASPSMSSSSSVYSSPST
APSQSTQSTTLSAGTGSSRPNTASTGTSTLSRTSDWVRGQNEMLGPFMSGALQTAYVT
PPSSKASSQGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN
1 cctttggcag ccaaaactct gtcaacgaca gtactaacac caccccttct aatagagaag
61 aggttggtgc gttttccaac attaaagttg gatttaagaa aatgctgggt gccgtgccca
121 agggcaccaa aacgcccagc agtgatcaac actgccccac agttaagatc gggcctaaga
181 cattagtgat cccacctgag cctccaaatg gagaagatgt cgtgcagttt gatgcgaagt
241 tggaaactgt acgtgggtta ccagacttga caacggtgca aaatgagcat gaaaacaccc
301 catacacagt ccccccacta agtgaaaggg aacatagacc agccactgag cccctccctg
361 gcacaatact ggagatgtgg gacggtgagt tctaccacta ctccgtctat gtcagcggag
421 gcaaagccct gggggtccac aaaccccctg cagctataag cctcgcgaca attgagctca
481 cccccatatc tctttactgg cggcccgtct acactcccaa ctacttggtt tgtccagaca
541 cattaaaggg ccttgctggt gagaagtttc cctacactgc cttcagcaac aactgttaca
601 acttctgttg ctgggtgctg gagctcaatg acacgtggct tagtagaaga tgcatctcca
661 gaaccaccgg cttctttaaa ccgtaccagt cttggaatag gaagcctctt ccaaccgtcg
721 atgatgggaa aatcaaaaag gtggccaacg caattctctg tgcgcttggc tcgctgtttt
781 caaaaccaat caaagatcta ttgggcaaac tcaaaccact gaatctgctg catctgctcg
841 cgtcatgtga ctggactttc gcgggtatag tggagacggt catcttaatg gcggaactct
901 tcaacgtctt ttggactccg ccggatgtct ccaatttcat agcatccctg gtaggtgact
961 tcgagttgca agggcctgag gacttggccg tggagctcgt ccctgtggtt atgggtggca
1021 taggaatggt tctcggtttc accgctgaga aaataggccg catgttgtca tctgctgcgt
1081 caaccttgcg ggcatgtaaa gatctgggga actatgccct cgatatactc aagctagtca
1141 tgaagtggtt cttcccaaag aaagaagaga aagccgagat ggagacctta agagcgattg
1201 aggatgctgt cttggatatg gaggctatag gaaacaacca cctcacgact ctcctcaagg
1261 acaaggatag cctaacagct ttcatgaaga ccctagacct ggaagaggag aaagcaagga
1321 agctgtcaac caaatcatcc tcgccggaca tcgtcggcac cattaatgcc atactggcca
1381 gaatagctgc cgccagatct ctcctacaca aagccaaaga agagatgttt agcaggatca
1441 gaccagtggt tgttatgatc tcaggcaggc ccggcattgg caagacccat atggcaagac
1501 acctggctaa gagcatcgcc aataccatga gtggtgacca gagagtcggg ctcgttccgc
1561 gtaacggggt cgaccactgg gacgcctaca ggggggagag ggtggtttta tgggatgact
1621 acggcatggg gagccctgtc aaagatgcac taacactaca agaattggcc gacacctgcc
1681 cagtcacctt aaattgtgac aggattgaga acaagggaaa gatgtttgac agtgacgtca
1741 ttataatcac aaccaactta gtcaaccctg cacccctcga ctacgtgaac ttcgaggcat
1801 gctccagaag agttgacttc ctggtttatg cagagtcacc agaaatcgaa aaggttaaga
1861 gagattttcc tggtcaacct gatatgtgga aagaccactt caagccggat ttttcccata
1921 taaagttaac tctagccccc cagggcgggt ttgataagaa tggcaacact ccgcatggta
1981 agggtaccat gcgatcttta acccaggggt ccctaactgc aagagttgct gggcttgttc
2041 atgagaggag agatgaattt cagctccaag ggagcgacct ccaaacatac aattttgaca
2101 ccaacagggt ctccgcattc aggaagctgg ctgcagacaa caagtatgga atcatggaga
2161 caatgagagt gggtgcagcg ctcaagaacg ttaagacttt ggaagaccta aaagtcgccc
2221 tgagagacgt gaagttcaat gagtgtgaaa ttatttacag gaactccaag tatcgagtct
2281 cttccaatgg caaaggctca gtttctgttg ataaggtcga ggaccacaca tcccaaactg
2341 caaatgaggt gagctcagca cttttaagac tcaggcaagc aagggccaga tactatgtca
2401 gttgcttcca agaccttgtc tacactctca tacaggttgc tggggcatca ttcgttgtta
2461 acaggatctc caagagattc tgttgggaaa ggtgggttaa accaactgag acccaggaga
2521 cgagtgaacc cgagaaggag accgctcagg gcaggtggga gattgaaccc aaggacgcag
2581 aaccagaagg caagaagggc aagaacaaga aggggagagg caagaaacac acagccttct
2641 ccagtaaagg tctaagtgat gaagagtatg acgagttcaa aagaatcaga gaagaaagaa
2701 atggaaagta ctctattgag gagtacctgc aagaccggga ccgctactat gaggaggtgg
2761 cagttgcccg agcaacagag gaggacttct gtgaagagga agaggccaag ataagacaaa
2821 gaatcttccg cccgacaaag aaacaaagaa aggaggaaag aggtgtgctt ggcctgatca
2881 ccggctcaga catcagaaag aggaggccag acgacttcca accaaaaggc aacctatggg
2941 cggatgatac tagaagtgtg gactacaatg agagactcga ctttgaggcc cctccaagtg
3001 tttggtcgag gatagttcca ttgggcactg gttggggttt ctgggtctca tccaacctct
3061 tgatcacgac aacacacgtc cttcctaagg gactcaaaga actttttgga gttgaaatca
3121 aacaaatcca gattcacaaa tctggagagt tctgcaggtt taggttccca agaccaatca
3181 ggccagatgt cacagggctt gtgttggaag aaggtgctcc agagggcact gtttgctcca
3241 tacttgtaaa gagacctaca ggtgagatga ttcccctggc agtgagaatg ggcactcatg
3301 cgtccatgaa aattcagggc agaaccgtcg gtggccaaat gggaatgctt ctcacaggag
3361 cgaacgcgaa gaacatggat cttggcaccg gtcctggtga ctgcggctgt ccctacatct
3421 acaagcgcgg taatgacata gttgttgcag gagtccacac cgcggcagcc cgggggggca
3481 acactgtcat ctgtgccacc caagggcaag atggggaggc agtccttgaa ggaaatgaga
3541 atcatggcac atactgtggt gccccaattc tcggtccagg cagagcgccc aaactcagca
3601 caaagaccaa attctggcgc tcatcaccag acgccttgcc acctggcaca tatgaacctg
3661 cttacctagg aggcaaagac cctagagtag aaaaagggcc ctccctgcag caagtcatga
3721 gagaccagtt aaagcccttt acagagccta ggggtaaacc accgagacct gcagtcctag
3781 aagaggccaa aaagacagtg atgaacgttt tggaacaaac cattgaccct gccaagccat
3841 ggacctactc gcaagcatgt gcctcgctgg ataaaaccac atccagtggt agccctcacc
3901 atgtcaggaa aaacgaccac tggaatggag aatccttcac aggtcccctc gcagatcaag
3961 catctaaagc caacctcatg tatgaacagg ccaagcatgt gcagcccgtg tatacggccg
4021 cgctcaaaga tgaacttgtt aagactgata aaatctacaa gaagataaag aagaggctcc
4081 tatgggggtc ggaccttggt acgatgatca ggtgcgccag ggcttttggt ggcctcatgg
4141 acagcatgaa ggcgagttgc atagctcttc catgcagggt gggaatgaac atgaatgagg
4201 acggccccat catctttgac aagcactcca aatacagata ccactatgat gctgactact
4261 ctaggtggga ttcaacccaa caaaggagca ttctgtctgc tgccatggaa gtgatggtgc
4321 gattctccgc agaaccagaa ttggcacaag tggttgcaga ggaccttttg gcgcctagtc
4381 aactagatgt tggcgatttt gtcatctcag ttcaggaagg cctaccatca ggggttccat
4441 gcacgtcaca atggaattca atagcacact ggatcctaac cttgagtgca atggcagaag
4501 tatcaggcct ttcaccagat gttgtccaag cccactcctg tttttctttc tatggtgatg
4561 atgagattgt cagcactgac atcaacctcg accctgaaaa attgacacag aaactcagag
4621 agtacggtct ggttcctacc cgacccgaca aaactgaagg tccccttgtc ataactgaag
4681 acctagctgg cctgactttc ctgcgtaggt caattgcacg ggacccagct gggtggtttg
4741 ggaaattgga tcaggactca atcctcaggc aattgtattg gacaagaggg cccaatcatg
4801 agaacccata cgaaagcatg gtcccccatt ctcagcgagc cacacagctc atggccctcc
4861 taggtgaagc ctcattgcat gggccccaat tttacaagaa ggttagtaag atggttatca
4921 gtgagatcaa gagtggtggt ctggaatttt atgtgcccag acaagaggcc atgttcaggt
4981 ggatgagatt ctctgacctc agcacatggg agggcgatcg caatcttgct cccgagggtg
5041 tgaatgaaga tggcgtcgaa tgacgctact ccatctgatg atggtgcagc cggcctcgta
5101 ccagagatca acaatgaggt tatggctctt gaacccgtcg ctggggcttc cattgcagcc
5161 cccgttgtcg gacaacaaaa tataattgat ccctggatta gaaataattt tgtacaagcc
5221 cctgctggtg aatttacagt ctcccctaga aattctcccg gagaactttt gcttgattta
5281 gagctgggcc ctgaactaaa tccttatctt gcacatctgg ctagaatgta taatgggcat
5341 gcgggaggaa tggaagtgca gatagtacta gctgggaatg cgttcacagc tggtaagatc
5401 ctatttgctg ccatcccacc tagcttcccc tatgaaaatt tgtcacccgc tcaactgact
5461 atgtgccccc acgtgatagt ggatgtgaga caactggaac cggttctcct gccaatgcct
5521 gacataagga atgttttcta tcactacaac caaaacaaca gccccaaact caggcttgta
5581 gcaatgctgt acactcctct gagagctaac aactcaggtg atgacgtgtt cacggtgtca
5641 tgccgcgttt taacacgtcc ctccccagat ttccaattca cctttctggt cccacctaca
5701 gttgagtcta aaactaaaaa tttcactcta cctgttctca gagtctccga gatgacaaac
5761 tcaaggtttc cagtcgttct ggaccaaatg tacacgagca ggaatgaaaa catcattgtc
5821 caaccccaaa atggcaggtg cacgactgac ggtgagctcc ttggcaccac catcttgcag
5881 tccgtgtcta tttgcaactt taaaggaacc atgcaggcag aattgagtga tcaaccacga
5941 taccaatacc aactgcaact taccaatttg gatggctcac ccatagaccc aacagatgat
6001 gtgcctgccc ctcttggcac accagatttt caagctatgt tgtatggcgt tgcgagtcaa
6061 cgttcctcca gagacaatgc cactagggca catgatgcac aaattgacac tgcgggtgac
6121 acattcgccc caaagattgg ccaggttcgt ttcaaatcaa gttccaatga ctttgaccta
6181 catgacccta caaaattcac gcccattggc gtcaatgtgg acgaccagca cccttttaga
6241 caatggtctc taccaaatta tggtggtcat cttgccctga ataatcattt ggcccctgct
6301 gtaacgccac tcttccctgg cgaacaaatt ttattcttca gatcatacat tccaagcgct
6361 ggaggtcaca cagacggtgc tatggattgc ttgctacccc aagaatggat tgagcacttc
6421 taccaagagt cagccccttc ccaatctgac attgcattag tgaggttcat aaaccctgac
6481 acaggaagag tgctctttga agccaaattg cacaaacaag gcttcctcac aattgcagca
6541 tctggagacc accccatcgt gatgcccact aatggttatt tcaggtttga agcttgggtc
6601 aaccccttct acactctcgc ccccgtggga actgggtctg ggcgcagaag gatccaataa
6661 tggcaggagc tttccttgca ggcttggcag gcgatgttgt gacttccagt ttgggctcgc
6721 tcgtgggtgc tggagccaac gccatcaacc aaaaagtgga gtatgacttt aacagacagc
6781 ttcaggaggc atctttcaga catgacaagg acatgctcaa agcccaggtt gcagcaacag
6841 caggccttca acaggctatg attgacatca aacgggaggc attgaccgca ggcggctttt
6901 ctcccgctga tgctgcgaga ggtgcagtca gagcacctat gacacagatc ctggattgga
6961 atggttccag gtattgggct cccaactcca tgaggacaac aggttattca ggtacatttg
7021 tttcccaggg tgtcaaaaat cttccccatt tgtctagtca aactccaagt atttctagac
7081 cctccagagc ttcaccatcc atgtctagtt cttctagtgt gtatagttct ccctctactg
7141 ctccttcgca atcaacacaa tcaacaacgc tgtctgcggg gactgggtcg tccaggccta
7201 acaccgcgtc cacaggaaca tccacactgt ctagaacaag tgattgggtt agaggtcaga
7261 atgagatgct tggcccgttc atgagtggtg cactccaaac tgcttacgtc acaccaccat
7321 cgagcaaggc ctcatcacaa gggacggtct cgaccgtgcc caaggctgtt ttggactcct
7381 ggactcctat gttcaacacc cataggcagc ctctcttcgc ccacttgcgt aggcgagggg
7441 agtcacagat ttagtgaaaa ggatgattag ggttttcttc ctttcccctt cttattcttt
7501 t
//