Typing tool
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Typing tool
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Complete norovirus genomes
| KU311161 | GI.7 | |
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| GI.P7 |
ORF1: 1..5390
ORF2: 5374..6990
ORF3: 6990..7637
LOCUS KU311161 7657 bp RNA linear VRL 01-JAN-2016
DEFINITION Norovirus Hu/GI.7/AlbertaEI404/2012/CA isolate OU4 non-structural
polyprotein gene, partial cds; and major capsid protein and minor
capsid protein genes, complete cds.
ACCESSION KU311161
VERSION KU311161.1
KEYWORDS .
SOURCE Norovirus Hu/GI.7/AlbertaEI404/2012/CA
ORGANISM Norovirus Hu/GI.7/AlbertaEI404/2012/CA
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7657)
AUTHORS Hasing,M.E., Hazes,B., Lee,B.E., Preiksaitis,J.K. and Pang,X.L.
TITLE Analysis of the intra-host genetic diversity of norovirus in
patients with acute and chronic infection using next generation
sequencing
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7657)
AUTHORS Hasing,M.E., Hazes,B., Lee,B.E., Preiksaitis,J.K. and Pang,X.L.
TITLE Direct Submission
JOURNAL Submitted (15-DEC-2015) Provincial Laboratory for Public Health,
8440-112 Street, Edmonton, Alberta T6G 2J2, Canada
COMMENT ##Assembly-Data-START##
Assembly Method :: Bowtie v. 2-2.2.5
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7657
/organism="Norovirus Hu/GI.7/AlbertaEI404/2012/CA"
/mol_type="genomic RNA"
/isolate="OU4"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:1772260"
/country="Canada"
/collection_date="Nov-2012"
CDS <1..5390
/codon_start=3
/product="non-structural polyprotein"
/protein_id="ALT54487.1"
/translation="ASNDAVAAADVSKQNANTNNENIGSRLMARLKERISSQRGEGTT
KIKNTEMALDLIRRSQTPSPTRPDPPPKAQRDRPPRTVSEVKQVLGWDGPASKDYGAR
AWCDLTAEEKKEILDNNERLFDAGGVTPSTVPSTFERCETSERVDGCHPVKWSESAGV
DLGVDSLTTVTGPVWNMCPLPPIDSRNNGPASEPRIGDMIEFYEGHIFHYAIYLGQGK
TIGVHSPQAAFSIARITIHPMAAWWRVCYEPTDQQRLSYDQLKELENEPWPYASITNN
CYEFCCRVMSLDDTWLQRKLVTSGRFNHPTQEWSKETPDFHQDSKLEIVRDAILSAIN
GLVSQPFKNILSKIKPLNLLSLLSNCDWTFMGVVELVVLLTELFDIFWTPPDISNFIA
SLLPDFHLQGPEDLARDLVPLILGGIGLAIGFTRDKITKVMKSAVDGLRSATQLGQYG
LEVFSIIKKYFFGGDQTEKTLKGIENAVIDMEVLSSTNVTQLVRDKKLAKTYMNILDN
EEEKARKLSVRSADPHVVTTVNNLISRISMARSALAKAQAEMTNRARPVVIMMCGPPG
IGKTKAAEHLANRLASEIRPGGKVGLVPRESIDHWDGYHGEEVLLWDDYGMSKITEDC
NKLQAIADTAPLTLNCDRIENKGMQFVSDAIIITTNAPGPAPVDFVNLGPVCRRVDFL
VYCTAPEIEQTRRAHPGDTNAIKSLFKPDFSHLKMEIAPQGGFDNQGNTPFGKGAMKS
TTLNRLLIQAVALTMERQDEFQMQGAVYNFDEDRVTAFTSLARANGLGLLSMAALGKK
LRSVNNMEGLRNALKGYKITECDIVWNNRTYTIKGDGSNVSVTEKQAAATLQQQAISS
VTLALSRLRAARALAYASCLQSAVTTILQMAGSAVVISRAVKRMFGTHTNQPALEGKP
REHNCRVHRAEREGRGPIGHDGIIERYGLCETDQEEEEKIEMEVPTADKEGKNKGKNK
KGRGRKNNYNAFSRRGLSDEEYEEYKKVREEKGGNYSIQEYLEDRQRYEEELAEVQAG
GDGGIGETEAEIRHRVFYKSKSGMRKQRQEERRQLGLVTGTEVRKRKPIDWTPPKNDW
SEDTRQVNYDEHISFEAPPSIWSRVVKFGSGWGFWVSSTVFITTTHVIPPEAKEIFGE
KLSDIAIHRVGEFTQFRFSKKMRPDLSGMVLEEGCPEGTVCTIMVKRDSGELLPLAVR
MGAVASMKIQGKLMHGQSGMLLTGANAKGMDLGTIPGDCGAPYVHKRGNDWVVCGVHA
AATKSGNTVVCAIQSGEGEATLEGGGQNKGHYAGHPILRYGNGPSLSTKTKFWKSTPQ
PLPPGTYEPAYLGGRDPRVDGGPSLQQVLRDQLKPFAEPRGRLPEPSLLEAAVETVTN
VLEQTMDTPVPWSYSDACMSLDKTTSSGYPHHKRKNEDWNGNAFVRELGEQAAHANNM
YELGKSVKPVYTAALKDELVKPEKVYTKIKKRLLWGADLGTVIRAARAFGPFCEAIKP
HVIKLPIKVGMNAIEDGPLIYAEHAKYKYHFDADYTAWDSTQNREIMLESFNIMCKLT
ANPSLAAVVAQDLLSPSEMDVGDYVISVKDGLPSGFPCTSQVNSINHWIYTLCALSEV
TGLAPDVLQSQSYFSFYGDDEIVSTDVEFDPIKLTQVLREYGLKPTRPDKSEGPIIVK
QQIDGLVFLRRTISKDAAGYQGRLDRNSIERQLWWTRGPNHDDPFETLIPHQQRKIQL
ISLLGEAALHGEKFYRKIANRVIQEVKEGGLELYIPGWQAMFRWMRFHDLSMWTGDRN
LLPDYVNDDGV"
CDS 5374..6990
/note="VP1"
/codon_start=1
/product="major capsid protein"
/protein_id="ALT54488.1"
/translation="MMMASKDAPSNMDGTSGAGQLVPEVNAAEPLPLEPVVGAATAAA
TAGQVNMIDPWIMNNFVQAPEGEFTISPNNTPGDILFDLRLGPHLNPFLLHLSQMYNG
WVGNMRVRVMLAGNAFSAGKIIICCVPPGFESQNISIGQATMFPHVIADVRVLEPIEV
PLDDVRNVLFHTNENRPTMRLLCMLYTPLRAGGASSGTDPFVIAGRVLTCPAPDFNFL
FLVPPSVEQKTRQLTIPNIPLNNLANSRVPAMINKMTVSADQNQVVQFQNGRCTLEGQ
LLGTTPVSANQVARIRGKVFSTNSGTGLNLTEVDGTPYHAFESPAPLGFPDIGNCDWH
VYAFKVNQNTGDPMYRLDITQGNSFAPHLGSIEFSSENHPSGDQLGTLTWISPLNNAS
RVDPWKIPTYGSTLTESTNLAPPIFPPGFGESIVYFMSDFPIVSGNTAQIPCTLPQEF
VSSFVEQQAPIRGEAALLHYVDPDTHRNLGEFKLYPDGFITCVPNTGGGPQNLPSNGV
FVFSSWVSRYYQLKPVGTTGPVRRLGVRRV"
CDS 6990..7637
/note="VP2"
/codon_start=1
/product="minor capsid protein"
/protein_id="ALT54489.1"
/translation="MAQAIIGAIAATAAGSAVGAGIQAGTEAALQYQRFQQDLTLQEN
SFKHDERMLGLQIEGSNALLQKNLSTRYNLLVGAGLSSADAARSIAGAPVTKIVDWNG
VRIAAPTSTATTLRSGNFMSIPTIPKKEPQKLSARSVGLSNPNYDSSTMISRTSQWVE
SQNSIRNLSPFHSSALRTTWVTPPGSTSTSTFSTVSSAPRYFNTERLPLFANNGK"
3'UTR 7638..>7657
ORIGIN
1 tggcgtctaa cgacgctgtt gccgctgctg atgtcagcaa acaaaatgct aacaccaaca
61 acgaaaacat cggttctcgc cttatggcga gactgaaaga gcgtataagc tctcaacgtg
121 gtgaaggaac cacgaaaatc aagaacactg agatggcact ggatctgata cgtaggtccc
181 aaacaccatc gccaacgcgc ccggaccccc ctcctaaggc acaacgcgat cgccctccga
241 ggactgtgtc agaagtcaag caagttttag gttgggatgg ccctgctagt aaggattatg
301 gggcccgagc atggtgcgac ttaacagctg aagaaaagaa ggagatcttg gacaacaacg
361 agcgcctctt tgacgctggc ggtgtgaccc cttcgacagt accaagcact tttgagagat
421 gtgaaacatc tgaacgagtc gacggctgcc accctgtcaa atggagcgag tctgcgggag
481 tggatttagg cgtggattct ctgaccactg tcacaggtcc agtatggaat atgtgccccc
541 ttccaccgat tgactcacgt aacaatggcc ctgcaagtga gccacgcatt ggagacatga
601 tagaatttta tgaagggcat atatttcatt atgccatata tcttggtcaa gggaagacca
661 taggagtcca ctccccccag gcagctttct ccatagctcg tataactata caccctatgg
721 cagcatggtg gcgtgtctgt tatgaaccaa cagatcagca acgcctcagc tatgaccaat
781 taaaggaact tgagaatgaa ccgtggccct atgcatccat aacgaataat tgttatgagt
841 tctgctgccg tgtcatgtcc ctggacgaca cttggttaca acgaaagctg gtgacatccg
901 gtaggtttaa tcaccccacc caggagtggt ccaaggaaac acctgatttc catcaagatt
961 caaaattgga aatagtgaga gacgcaatac tatccgccat aaacggcttg gtctctcaac
1021 cttttaagaa tatcctctca aaaattaagc cactgaattt gttgtctttg ctatcaaatt
1081 gtgactggac tttcatgggg gtcgtcgagt tagtggtgct actgactgaa ctgtttgata
1141 tcttctggac cccacctgat atctccaact tcatagcatc tctcctgcct gactttcacc
1201 tgcaagggcc agaggatttg gcaagagatc tggtcccatt aatattaggg ggtattggcc
1261 tggctattgg tttcactaga gacaaaatca caaaggtcat gaagagtgcc gttgatggtc
1321 tgcgctcagc cacgcagctt ggacaatatg gccttgaggt gttctcgatc ataaagaagt
1381 atttctttgg tggagaccag actgagaaaa ccctcaaggg catagaaaat gcagtcatag
1441 atatggaggt cctgtcgagt accaatgtca cacaactggt gcgcgacaag aagttggcca
1501 aaacatacat gaatatcctg gacaatgagg aggaaaaggc aaggaaactt tcagtgcgca
1561 gtgcagaccc acatgttgtg acaacagtca acaatctcat ctcgcgcata tccatggcgc
1621 gatcagctct tgccaaggct caggctgaga tgactaatcg ggcacgcccc gtggtcataa
1681 tgatgtgtgg gccaccaggt ataggaaaaa ccaaagctgc tgagcatctg gccaatcgcc
1741 tggctagtga gataagacca gggggaaaag tgggcttagt gcctagagaa tccattgacc
1801 attgggatgg ctaccatggg gaagaagtcc tgctgtggga tgactacggc atgtccaaga
1861 taacagagga ttgtaataaa ctacaagcca tagctgatac tgctccactc acactcaact
1921 gtgacagaat agagaacaag ggtatgcagt ttgtgtcaga tgcaataata ataacaacaa
1981 atgcccccgg gccagccccc gtcgactttg ttaaccttgg tccagtatgt cgacgtgtag
2041 acttcttggt gtactgcacc gcccccgaaa tcgaacagac caggagagcc caccctgggg
2101 acaccaatgc tattaagagt ttgttcaaac cagacttttc ccatctaaaa atggagatag
2161 caccacaagg gggatttgac aatcaaggta acaccccctt tgggaagggt gccatgaaat
2221 caaccacact caataggcta ctcatacagg cagttgcttt gacaatggaa agacaagatg
2281 agttccagat gcagggggca gtgtataact ttgatgagga ccgggtcacg gctttcacta
2341 gcctggcccg ggccaacgga ctaggacttc tgagcatggc tgcactcggt aaaaagttgc
2401 ggagcgtcaa caatatggaa ggactccgca acgccctcaa agggtacaag atcactgaat
2461 gtgacattgt gtggaacaac aggacttaca ccattaaggg agatggatca aatgtgagcg
2521 tcacagaaaa gcaggcagct gccactcttc agcaacaagc catcagctca gttactctgg
2581 cactttctag gttgcgcgcc gcacgagcgt tggcgtatgc atcatgtctc cagagcgcag
2641 taaccaccat cttgcaaatg gctgggtctg cagtggtgat cagcagggca gtcaaacgca
2701 tgtttgggac ccataccaac cagccagcac tggagggcaa acccagggaa cacaactgca
2761 gggtccaccg tgccgaaagg gaaggtcgtg gccctattgg tcatgatggc atcatagaac
2821 ggtacggtct gtgtgagact gaccaagaag aagaagaaaa gatcgagatg gaagtgccaa
2881 ctgcagacaa agaaggcaag aacaaaggca agaacaagaa ggggcgaggt aggaaaaaca
2941 actacaacgc cttctctagg cgaggcctga gtgatgagga gtacgaagaa tacaagaagg
3001 tcagagaaga gaagggtggt aactacagca tccaagaata cctcgaggac cgccaacgat
3061 atgaagaaga gttggctgag gtccaagcag gtggagatgg cgggattggt gaaacagagg
3121 cagagatccg ccatcgtgtt ttctacaaat ccaagagcgg catgcgaaaa caacgtcaag
3181 aggagcgccg acaacttgga ttagtcacag gcactgaagt cagaaagcgc aagcccatag
3241 attggacacc acctaagaat gactggtcag aagacaccag acaggtcaac tatgatgagc
3301 acatcagctt tgaagcccca ccttctattt ggagtagagt ggtcaaattt ggcagtggat
3361 ggggcttttg ggtgagttca acagttttta ttacaaccac acacgtcata ccaccagaag
3421 ccaaagaaat ttttggggaa aaactttcag atatagcaat acacagagtt ggggagttca
3481 cacaatttag attctctaag aaaatgagac ctgacctcag tggtatggtc cttgaggagg
3541 gttgcccgga gggaacggtg tgcactataa tggtgaagag agactcaggt gaattgctac
3601 ctctagcagt gcgcatggga gctgttgcgt ccatgaagat acaaggtaag ctcatgcatg
3661 gtcagtctgg tatgttgcta accggtgcaa atgcaaaggg aatggacctg ggcaccatcc
3721 ctggtgactg tggagctcca tatgtgcata agaggggaaa tgattgggta gtgtgtggag
3781 tgcacgcagc agcaaccaag tcgggcaaca ccgtggtgtg tgcaatacaa tcaggtgaag
3841 gtgaagctac ccttgaaggg ggcggacaaa acaaagggca ttatgcgggc cacccaattt
3901 taagatatgg caatgggccc tctctctcca caaaaactaa attctggaaa tcaacccccc
3961 aaccactccc gcctggaacc tatgaaccag cttacctagg tggacgtgac cccagggtag
4021 acggtggtcc atctctccaa caagtcctac gtgaccaact caaacctttt gctgagcccc
4081 gtggtagact gccagaaccg agcttgctcg aagcagctgt ggagactgtt acaaatgttt
4141 tagaacaaac catggataca cctgtacctt ggagttatag tgacgcctgt atgtctcttg
4201 acaagaccac cagctcaggt tatccgcacc ataaacgcaa gaatgaagat tggaatggca
4261 atgcgtttgt gcgtgaactt ggggaacagg cagctcatgc taataacatg tatgaattgg
4321 gcaagtcagt taaaccagtt tacacagcag cacttaaaga tgaattggta aaacctgaaa
4381 aagtgtacac aaaaataaaa aagagactgc tttggggtgc ggaccttggc acagtcattc
4441 gggctgcccg agccttcggc ccattttgtg aggcgataaa gccacatgtg ataaaattgc
4501 cgatcaaggt tggcatgaat gcaattgaag atggccccct catatatgct gaacatgcaa
4561 agtataaata tcattttgat gcagattaca cagcttggga ctcaactcag aatagagaaa
4621 ttatgctaga atctttcaac attatgtgta agctcacagc caatccatca ctggccgctg
4681 ttgtggcgca agacctactg tccccatcag aaatggatgt gggggattat gtgattagtg
4741 ttaaggatgg cctcccctca gggttcccat gcacctcaca agtgaacagc ataaaccatt
4801 ggatttacac tctgtgtgcc ctgtcagagg tcactggtct ggcccctgat gttctgcaat
4861 cccagtctta cttttccttc tacggggatg atgagatagt gtcaactgat gtggaatttg
4921 acccaataaa actcacccaa gtgctcagag agtatggttt gaagcccacc cgacctgata
4981 aatcagaagg acccatcata gtgaaacaac aaatagatgg gctggtcttt ctcaggcgca
5041 ctatatcaaa agacgctgct ggttaccagg ggcgtttaga ccgcaactcc attgaaaggc
5101 aattgtggtg gactcgggga ccaaatcatg atgacccctt tgagactctg ataccccatc
5161 aacaaaggaa aattcaattg atatccctgc ttggtgaggc tgcactccat ggagagaaat
5221 tttacaggaa gattgctaat agggtgatac aagaagttaa ggagggaggg cttgagctct
5281 acataccagg ttggcaggcc atgtttcgct ggatgcgatt tcatgacttg agcatgtgga
5341 caggagatcg caatctactg cctgattatg taaatgatga tggcgtctaa ggacgccccc
5401 tcaaacatgg atggcaccag tggtgccggt cagctggttc cagaggttaa tgcagctgaa
5461 cctctacccc ttgaaccggt ggtgggcgcc gcaaccgcgg cggccaccgc tggacaggtt
5521 aatatgatag acccctggat tatgaataat tttgtccaag cccctgaagg cgaatttact
5581 atttcaccca ataacacccc tggagacatt ttatttgatt tgcgtctggg accacacctt
5641 aacccctttc tcctgcattt gtcccagatg tataatggtt gggttgggaa tatgagagtt
5701 agggtcatgc ttgcagggaa cgcgttctct gctggtaaga tcataatttg ttgtgtccca
5761 cctggctttg aatcccagaa catatcaatt ggacaagcca caatgttccc ccatgtcatt
5821 gctgatgtga gagtcctgga gcccatagag gtcccccttg atgatgtgcg caatgtcctg
5881 ttccacacaa atgagaatcg cccaaccatg cgattgctct gtatgttata cacacctctc
5941 cgtgctggag gagcttcatc aggcacagat ccttttgtca ttgctggccg tgtgttaact
6001 tgtcctgctc ctgatttcaa ttttctgttt cttgtgcccc ccagtgtaga acaaaagacc
6061 aggcaattga ctatacccaa tatacccctg aacaatttgg ctaactccag agtgcctgca
6121 atgataaaca agatgacagt ctctgctgat cagaatcagg tggtccagtt tcaaaatggc
6181 cgttgcacac ttgaaggaca actcttaggt acaacccctg tttcagccaa ccaagttgcc
6241 cgcatacgtg gcaaagtctt ctccaccaac tccgggacgg ggcttaattt aactgaagta
6301 gatgggaccc cctaccatgc atttgagagc ccggcccccc tcggttttcc tgacataggc
6361 aattgtgatt ggcacgtgta tgcctttaag gtaaatcaaa acacagggga ccccatgtac
6421 agattggata taacacaagg aaactcattt gcaccgcatc ttggctccat tgagtttagt
6481 tctgaaaacc acccatcggg ggaccaacta ggcacactta cttggatctc ccctctcaac
6541 aatgcttcta gggttgatcc ctggaaaatc ccaacatatg gttcaacatt gactgagtcc
6601 accaacttgg caccacccat ctttccacca ggttttggtg agtctatagt ttattttatg
6661 tcagattttc ctattgtgtc aggtaatact gcccaaatcc cttgcaccct gccccaagaa
6721 tttgtttcat cctttgtgga gcaacaggca ccgatccgag gtgaagctgc tctattgcat
6781 tatgtggacc cagataccca tcgcaatctg ggagaattca aattgtaccc tgatgggttc
6841 atcacttgtg tgcctaacac gggtggcggc ccccaaaatc tcccatcgaa tggtgtcttt
6901 gtcttctctt cttgggtttc tagatattat caattaaagc ctgtgggaac aaccggtccg
6961 gttaggaggc ttggtgtgag aagggtataa tggcccaagc catcatagga gctattgccg
7021 ccaccgctgc tggcagcgca gtgggggcag gtatccaagc tggaactgag gcagccttgc
7081 aataccaaag gtttcagcaa gatctcacac tgcaggagaa ttcttttaag catgatgaaa
7141 ggatgttggg tttacaaatt gagggatcta acgctctgct acaaaagaat ctttctaccc
7201 gttataatct cttagttggt gcaggtcttt cctcagctga tgctgcaaga tccatagctg
7261 gggctccagt gacaaaaatc gtggactgga atggggtgag aatcgctgcc cccacgtcca
7321 ctgccaccac cctccgttct ggcaacttca tgagcatacc aactataccc aaaaaggagc
7381 cccaaaaatt gtcagcacgc tctgtaggcc tctccaatcc taattatgat tcatctacta
7441 tgatttctag gacaagtcaa tgggtggagt cgcaaaattc aatcaggaat ttgtcacctt
7501 tccatagctc ggctctgagg accacttggg taacccctcc tggttctact tctacttcaa
7561 ctttttctac tgtttcttcg gcgccacggt acttcaacac cgagcgtctt cctttgttcg
7621 caaacaatgg aaaatagttt ttgtaatata atgtggg
//