Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| KM198549 | GII.6 | |
|
|---|---|---|---|
| GII.P7 |
ORF1: 1..5094
ORF2: 5075..6724
ORF3: 6724..7434
LOCUS KM198549 7434 bp RNA linear VRL 13-NOV-2014
DEFINITION Norovirus Hu/GII/30473/2010/VNM nonstructural polyprotein and
capsid protein VP1 genes, complete cds; and capsid protein VP2
gene, partial cds.
ACCESSION KM198549
VERSION KM198549.1
KEYWORDS .
SOURCE Norovirus Hu/GII/30473/2010/VNM
ORGANISM Norovirus Hu/GII/30473/2010/VNM
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7434)
AUTHORS Cotten,M., Petrova,V., Phan,M.V., Rabaa,M.A., Watson,S.J.,
Ong,S.H., Kellam,P. and Baker,S.
TITLE Deep sequencing of norovirus genomes defines evolutionary patterns
in an urban tropical setting
JOURNAL J. Virol. 88 (19), 11056-11069 (2014)
PUBMED 25056894
REFERENCE 2 (bases 1 to 7434)
AUTHORS Cotten,M.L., Petrova,V., Phan,M.V.T., Rabaa,M.A., Watson,S.J.,
Kellam,P. and Baker,S.
TITLE Direct Submission
JOURNAL Submitted (13-JUL-2014) Virus Genomics, The Wellcome Trust Sanger
Institute, Hinxton CB10 1SA, United Kingdom
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. 2.4.0
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7434
/organism="Norovirus Hu/GII/30473/2010/VNM"
/mol_type="genomic RNA"
/isolate="Hu/GII/30473/2010/VNM"
/host="Homo sapiens"
/db_xref="taxon:1527003"
/country="Viet Nam"
/collection_date="01-Mar-2010"
/note="genotype: GII"
CDS 1..5094
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AII02775.1"
/translation="MKMASNDATTAFGSQNSVNDSINTAPSKKEEVGAFSNIKVGFKK
MLGAVPKGTKAPSNDQHCPTVKIGTKTLTVPPEPPNGEDIVQFDAKSETVLGLPDLTT
VQNEHENTPYSVPPLSEREHRPATEPLPGTILEMWDGEFYHYAIYVSGGKALGVHKPP
AAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
LNDTWLNRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFPGIVETVILMAELFNIFWTPPDVSNFISSLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLAAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARISAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
EIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERKDEFQFQGNGLQTYNFDTNRVSAFRRLAADNKYGLMETMRVGAALKN
VKTLEDLKAALRDVKFNECEIIYKNSKYRISSNGKGSVSIDKVEGQTSQTANEVCSAL
LRLRQARARYYVSCFQDLVYTLMQVAGASFVVSRISKRFCWEKWVKPTETQETSESEK
EVAQSSWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG
SDIRKRRPDDFQPKGKLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPKGLKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
KPPRPAILEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVKKNDHWNG
ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
QQRSILTAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
CDS 5075..6724
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="AII02776.1"
/translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENINAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQEDTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEGIVVQPQNGRCTLDGTLQGTTQ
LVPTQICAFRGILIGQTSRSPDSDSTDSAPRRRDHPLHMQLENLDGTQYDPTDEVPAA
LGAVDFKGTIFGVASQRDTSGSQVGATRAHEVIINTTDPRYTPKLGSVLMYSESQDFE
TGQPIRFTPIGMGENDWHQWELPNYSGRLTLNMNLAPAVAPAFPGERILFFRSIVPSA
GGYGSGQMDCLLPQEWIQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITV
ANSGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRNQ"
CDS 6724..>7434
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="AII02777.1"
/translation="MASAFLAGLAGDAITNGVGSLINAGANAINQKVEFDFNRQLQLA
SFKHDKEMLQSQVSATKQLQQEMMNIKQGALTAGGFSPTDAARGAVNAPMTKILDWNG
TRYWAPNSMKTTSYSGQFSSSPVHRSPAPSQLVASSKGKLQNDSASVHSSSSSVSSQS
THSTVLSSGTRSSRSTTTSTATPTLSRTSDWVRGQNERLSPFMDGALQTAFVTPPSSK
ASSNGTVSTVPKAVLDSWT"
ORIGIN
1 atgaagatgg cgtctaacga cgctaccact gcctttggca gccaaaactc tgtcaatgac
61 agcattaaca ccgccccttc taagaaagaa gaggttggtg cattctccaa catcaaagtt
121 ggatttaaga aaatgctggg tgccgttccc aaggggacca aagcacccag caatgaccag
181 cactgtccca cagtcaagat cgggaccaaa acattaacag ttccccctga gcccccaaat
241 ggtgaagata tcgtgcagtt tgatgcgaag tcagaaactg tgcttgggct accagactta
301 acaacggtgc aaaatgaaca tgagaacaca ccatactcag tccccccatt gagtgaaagg
361 gaacacagac cagccactga gccgctccct ggcacaatac tggagatgtg ggatggtgaa
421 ttctaccact acgccatata cgtcagcggt ggtaaagccc taggggttca taagccccct
481 gcggcaataa gcctcgcgac gatagagctc acacctatat ctctttactg gaggcccgtt
541 tacaccccca actacctggt ctgcccagac acgttgaaag gcctcgctgg tgagaagttc
601 ccctatacgg ccttcagcaa caactgttac aacttctgtt gctgggtgct tgaactcaat
661 gacacgtggc ttaacaggag aagcatctcc aggaccaccg gcttcttcaa accataccag
721 tcttggaaca gaaaacccct cccaaccgtt gatgatggaa agatcaaaaa ggtggccaac
781 gcaatcctct gtgcacttgg atcactgttt tcaaagccaa tcaaagactt gttaggcaaa
841 ctcaaaccac tgaacctgtt gcacttgctc gcgtcatgtg attggacgtt tccgggcata
901 gtggagacag tcatcctaat ggcagaactt ttcaatatct tttggacacc gccagatgtt
961 tccaacttca tatcctccct gataggtgat tttgaattgc aagggcctga ggacctggcc
1021 gtggagctcg tccccgtggt catgggtggc ataggaatgg ttctcggctt tactgctgag
1081 aagataggcc gcatgctgtc gtccgctgca tcaacactgc gggcatgtaa agaccttggg
1141 aattatgccc ttgacatact aaaactggtt atgaaatggt tcttcccaaa gaaagaagag
1201 aaagccgaga tggaaacctt aagggcgatt gaggatgccg tcctggacat ggaggctata
1261 ggaaataatc atcttacaac cctcctcaaa gataaggata gcctcgcggc cttcatgaag
1321 accctggacc tagaagaaga gaaggcaagg aagctgtcca ccaaatcatc ctcgccagac
1381 atcgttggca ctattaatgc catactggcc agaatatctg ctgccagatc cctcctgcac
1441 aaggctaaag aagaaatgtt tagtaggatc agacctgtgg ttgttatgat ctcgggtaga
1501 cctggtattg gcaagaccca catggcaaga cacctggcta agagcatcgc caacaccatg
1561 agtggcgacc aaagagtcgg gctcgttccg cgcaacgggg tcgatcactg ggacgcctac
1621 aggggggaga gggtggtcct gtgggatgat tatggcatgg gaaaccctgt caaagacgct
1681 ctaacgctgc aagagttggc cgacacctgc ccagtaactc taaactgtga taggattgag
1741 aacaagggga agatgttcga cagtgatgtc atcataatca cgaccaacct agtcaaccca
1801 gcgcccctcg attatgtaaa cttcgaggcg tgctccagaa gggttgactt tctggtctat
1861 gcagagtcac cagaaattga gaaggttaag agagatttcc ccggccaacc tgacatgtgg
1921 aaggaccact ttaagccaga cttctcccat ataaaactga ctctagcccc ccagggtgga
1981 tttgacaaaa atggtaacac cccgcatggc aagggcacca tgcgatccct aacccagggg
2041 tccctgactg caagggttgc aggtcttgtt catgagagga aagatgagtt ccagttccag
2101 gggaacggcc tccaaacata caactttgac accaacaggg tctccgcatt taggaggctg
2161 gccgcagata acaagtatgg actcatggaa acaatgagag taggtgcggc gcttaagaat
2221 gtcaagaccc tggaagatct gaaagctgcc ctgagggatg tgaagttcaa tgagtgtgag
2281 ataatttaca agaactccaa atatcgaatc tcctccaacg gtaaaggttc tgtctctatt
2341 gacaaagttg agggccaaac atcccagact gcgaacgagg tgtgttcagc actccttagg
2401 ctcaggcagg caagggccag atactatgtc agctgcttcc aagatctcgt ctacactcta
2461 atgcaggtcg ccggagcatc gttcgttgtc agcagaattt ctaagaggtt ctgttgggag
2521 aagtgggtca aaccaaccga gacccaggaa acgagtgaat ccgaaaagga agtagcccaa
2581 agtagctggg agattgaacc caaggacaca gaaccagaag gtaagaaggg caagaacaag
2641 aaaggaagag gcaagaagca cacagctttc tccagcaaag gcctgagtga tgaggagtat
2701 gacgagtaca agagaatcag ggaagaaagg aacgggaaat actccattga ggaatacctg
2761 caagaccggg atcgctacta tgaggaagta gcagttgccc gggcgacaga ggaggacttc
2821 tgtgaagagg aggaggccaa gattagacaa agaatcttcc gccccacaaa gaaacagagg
2881 aaggaagaaa ggggggtgct tggcttggtc actggttcag acatcaggaa gaggagacca
2941 gatgattttc aaccaaaggg caaactgtgg gcagacgaca ccagaagtgt ggactacaac
3001 gagagacttg atttcgaggc tcccccgagt gtctggtcga gaatagtccc attaggaacc
3061 ggctggggct tttgggtctc atccaacctc ctgatcacaa caacacatgt cctgcctaag
3121 gggcttaagg aactttttgg ggttgaaatc aaacagatcc aaattcacaa gtctggagag
3181 ttttgcaggt tcagattccc aagaccaatc aggccagatg tcacagggct cgtgctggag
3241 gaaggtgctc cagaaggcac tgtctgttcc atactcgtaa agagacctac aggtgagatg
3301 atccctctgg cagtgaggat gggcacgcat gcatccatga agatacaggg caggaccgtt
3361 ggtggccaaa tgggaatgct cctcacgggg gcaaacgcga agaacatgga tcttggcacc
3421 ggtcctggtg actgcggctg cccttacatc tacaaacgcg gcaatgacat agttgtcgcg
3481 ggtgtccaca ccgcagcagc ccggggaggc aacaccgtca tatgtgccac tcaagggcaa
3541 gatggggagg cagttcttga gggaaatgag aaccttggca cttactgtgg tgccccaatt
3601 ttgggtccgg gcaaggcgcc caaactcagc acgaagacca aattctggcg ttcatcacca
3661 gacgctttgc cgccaggcac ttatgagcct gcctacctag gaggcaagga ccccagagtg
3721 gaaaaaggac catccctgca gcaagtcatg agggatcagt taaaaccttt tacagaaccc
3781 agaggcaaac cacctagacc tgcaatctta gaagaagcca aaaagacagt gatgaatgtt
3841 ctagaacaaa ccatcgaccc tgccaagcca tggacctatt cccaagcatg tgcctcactg
3901 gacaagacca cttctagtgg tagcccccac catgtcaaga agaatgacca ttggaatgga
3961 gaatccttca ctggccccct tgcagaccaa gcatccaaag ccaatctcat gtatgagcag
4021 gccaaacatg tgcagcccgt gtacacggcc gctctcaaag acgagcttgt taagactgac
4081 aagatctaca aaaagataaa gaagaggctc ttatgggggt cggatcttgg cacgatgatc
4141 aggtgcgcca gggcctttgg cggtctcatg gatagcatga aggcaagctg tatagccctc
4201 ccatgtagag taggaatgaa catgaatgaa gatggcccca tcatatttga caaacactct
4261 aagtacagat atcactatga tgctgactat tccaggtggg attcaaccca gcaaaggagc
4321 attctcacgg ccgctatgga agtgatggtg cggttttctg ccgaaccaga actggcacaa
4381 gtggtcgcag aggaccttct ggcacccagc caactagatg ttggcgactt tgtcatctca
4441 gtccaggagg gtctgccatc aggggtccca tgcacatcac agtggaattc aatagcacat
4501 tggatcctaa ccctgagtgc aatggcagaa gtgtcaggtc tatcaccaga tgttgtccaa
4561 gcccactcct gtttctcatt ttacggcgac gatgagatcg tcagcactga catcaacctt
4621 gaccccatga agttgacaca gaaactcagg gaatatggtc tggtccccac ccggcctgac
4681 aaaactgaag gacccctcgt aataactgaa gacctcaccg gcctaacgtt tcttcgtagg
4741 tcgattgcac gagacccagc tgggtggttt ggaaaattag accaggactc aatcctcagg
4801 cagttatact ggacaagagg ccccaatcat gagaatccat atgagagcat ggtccctcac
4861 tcccaacggg ccacacaact catggccctt ctcggtgagg cttcactgca tggcccccaa
4921 ttctacaaga aagttagcaa gatggtcatc aatgaaatca aaagtggtgg tctggaattt
4981 tatgtgccca gacaagaggc catgttcagg tggatgagat tctctgacct cagcacatgg
5041 gagggcgatc gcaatcttgc tcccgagggt gtgaatgaag atggcgtcga atgacgctgc
5101 tccatcgaac gatggtgctg ccaacctcgt accagaggcc aacaatgagg ttatggcact
5161 tgaaccggtg gtgggagcct caatcgcggc tcctgtcgtc ggccaacaaa acataattga
5221 cccctggatt agagaaaatt ttgtccaagc accacagggc gagttcaccg tctcaccgag
5281 aaactcgcct ggtgagatgc tattaaatct tgaattaggc ccagaactca acccttacct
5341 aagccatttg tcccgcatgt ataacgggta tgctggtggc atgcaggttc aggtggtcct
5401 ggctgggaat gcgttcacag ctgggaaaat catctttgcc gccgtgccac cacattttcc
5461 cgtagaaaac atcaatgcag cccaaataac catgtgtccc catgtaattg ttgatgtgag
5521 acaacttgaa ccagtgcttt tacccctccc tgatataagg aacaggttct ttcattacaa
5581 tcaagaggat accccccgga tgaggcttgt ggcaatgctt tacactcccc tgagggctaa
5641 ttctggtgaa gatgttttta ctgtctcttg tagggtttta acccgtcctg cccctgattt
5701 tgaattcact ttcttggtgc caccaaccgt tgaatcaaag actaaacctt ttacactacc
5761 tatattaact cttggtgagc tatccaactc tagattccca gccccgatag acatgttgta
5821 cactgaccca aatgagggga ttgtggtcca accacaaaat ggtaggtgca ctcttgatgg
5881 cactctacaa ggcaccacac aactggtccc cacccaaatt tgtgctttca ggggcatact
5941 gattggccag acatcaaggt ctccagactc agactcaact gactcagccc ctcggagaag
6001 ggatcaccca ctccatatgc aattagagaa tcttgatggc acgcagtatg atccaactga
6061 tgaagtgcca gcagcccttg gtgccgttga cttcaagggg accatttttg gagtggccag
6121 tcagagagac acgtcaggga gtcaagtggg ggcaacccga gctcatgagg tgatcatcaa
6181 cactaccgat cctaggtata caccaaaact gggatccgtc ctcatgtatt cagagtcgca
6241 agactttgag actggacagc cgatccgctt cacacctata ggaatgggtg agaacgactg
6301 gcaccagtgg gagctgccta actactctgg acgcctgacc ctgaacatga accttgcccc
6361 agctgttgct cctgcttttc ccggtgagag gattcttttc ttcaggtcaa tagtcccatc
6421 tgctggtggc tacgggtctg gacagatgga ctgcctctta ccacaggagt ggattcagca
6481 tttctaccag gaagctgcac cgtcccaatc tgccgtggca ctcattaggt atgtcaaccc
6541 tgacacaggc agaaacattt ttgaggctaa attgcacagg gaaggtttca tcaccgtggc
6601 aaattctggc aataacccta ttgttgtccc tcctaatgga tatttcagat ttgaagcttg
6661 ggtgaatcaa ttttacactt tgacccccat gggaactggt caggggcgca ggaggaatca
6721 ataatggcca gtgcttttct tgcaggtctt gctggcgacg ccataacaaa tggcgttgga
6781 tctttaataa atgctggagc taatgcaatt aatcagaaag ttgaatttga ttttaataga
6841 cagcttcaat tggcatcatt taaacatgat aaagagatgt tgcaatcaca agtgtcagca
6901 accaagcagt tgcagcagga gatgatgaac ataaaacagg gggcgctgac cgctggcggc
6961 ttctccccca cggatgctgc tagaggggcc gttaacgccc caatgacaaa gattctggac
7021 tggaatggca ccaggtattg ggcaccaaac agcatgaaaa ctacaagcta ctcaggacag
7081 ttctctagca gccctgttca taggtcccct gctccttccc agcttgttgc ctcatcaaag
7141 ggtaaattgc aaaatgattc tgctagtgtg catagctctt cttcctctgt ttcttcacaa
7201 tcaacccatt caacagtgct gtcatcagga actagatcat ccaggtccac caccacatcc
7261 acagcaaccc ccaccttgtc caggaccagc gactgggtta ggggacaaaa tgagaggctt
7321 agcccgttca tggatggtgc tctccaaact gcctttgtca cacctccgtc gagcaaagct
7381 tcttcaaatg gtacggtctc aaccgttccc aaagctgttt tggactcctg gact
//