Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| KC631814 | GII.4 Yerseke | |
|
|---|---|---|---|
| GII.P4 Yerseke |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS KC631814 7575 bp RNA linear VRL 15-AUG-2013
DEFINITION Norovirus Hu/GII.4/MI001/2011/USA ORF-1, ORF-2, and ORF-3 genes,
complete cds.
ACCESSION KC631814
VERSION KC631814.1
KEYWORDS .
SOURCE Norovirus Hu/GII.4/MI001/2011/USA
ORGANISM Norovirus Hu/GII.4/MI001/2011/USA
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7575)
AUTHORS Taube,S., Kolawole,A.O., Hohne,M., Wilkinson,J.E., Handley,S.A.,
Perry,J.W., Thackray,L.B., Akkina,R. and Wobus,C.E.
TITLE A mouse model for human norovirus
JOURNAL MBio 4 (4), e00450-13 (2013)
PUBMED 23860770
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7575)
AUTHORS Taube,S., Kolawole,A.O., Hoehne,M., Handley,S.A., Perry,J.W.,
Thackray,L.B., Akkina,R. and Wobus,C.E.
TITLE Direct Submission
JOURNAL Submitted (15-FEB-2013) Microbiology and Immunology, University of
Michigan Medical School, 1150 West Medical Center Dr., Ann Arbor,
MI 48109-5620, USA
COMMENT ##Assembly-Data-START##
Sequencing Technology :: Sanger dideoxy sequencing
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7575
/organism="Norovirus Hu/GII.4/MI001/2011/USA"
/mol_type="genomic RNA"
/strain="Hu/GII.4/MI001/2011/USA"
/host="Homo sapiens"
/db_xref="taxon:1354724"
/lab_host="Mus musculus"
/geo_loc_name="USA"
/collection_date="2011"
/PCR_primers="fwd_seq: gtgaatgaagatggcgtctaacgacgcttccgct,
rev_seq: taaaaaaaaaaaaaaa"
/note="genotype: GII.4"
CDS 5..5104
/note="nonstructural polyprotein"
/codon_start=1
/product="ORF-1"
/protein_id="AGQ46693.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARP
KQPPPREIPQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPE
ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LARVELAPLSLYWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGK
LRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREM
AKRIAASLTGDQRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLTLAPQGGFDKNGNTPHGRGVMKTLTTGSLIARA
SGLLHERLDEFELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGRQLKDVRTM
PELKQALKNISIKKCQIVYSGCTYILESDGKGNVKVDRVQSASVQTNNELTGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVENTEETTSEDGC
PKPKDNEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPKLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQGSILRQMYWTRGS
NHEDPSETMIPHSQRPVQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5085..6707
/note="VP1"
/codon_start=1
/product="ORF-2"
/protein_id="AGQ46694.1"
/translation="MKMASSDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNSYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGTQEYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRRDGSTRGHKATVSTGSVHFTPKLGRIQFSTDTSNDFETGQNTRFTPVGVVQDG
STTHQNEPQQWVLPNYSGRDSHNVHLAPAVAPSFPGEQLLFFRSTMPGCSGYPNMNLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6707..7513
/note="VP2"
/codon_start=1
/product="ORF-3"
/protein_id="AGQ46695.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMIKVKQAMLLEGGFSETDAARGAIS
APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRTNLRAAVPAWGSSSTPS
NSSTATSVYSNQTASTRLGSTAGSGTSVSSFPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga
61 caccgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgggc
121 cctcggggcg cggcctaaac agcctccccc gagggaaata ccacaaagac ccccacgacc
181 acctactcca gaactggtta aaaatattcc ccctcccccg cccaacggag aggatgaaat
241 agtggtttct tatagtgtca aagatggtgt ttccggttta cctgaccttt ccaccgtcag
301 gcaaccggaa gaatctaaca cggccttcag tgtccctcca ctcaatcaga gggagaatag
361 agatgctaag gagccactga ctggaacaat tctggaaatg tgggatggag aaatctacca
421 ttatggcctg tatgtggagc gaggtcttgt actaggtgtg cacaaaccac cagctgccat
481 tagcctcgct agggtcgagc tagcaccact ctccttgtac tggagacctg tgtacactcc
541 ccagtacctc atctctccag acactctcaa gaaattacac ggagaaacgt tcccctacac
601 agcctttgat aacaattgtt atgccttttg ttgctgggtc ctggacctaa atgactcgtg
661 gctgagcagg agaatgatcc agagaacaac tggtttcttc aggccctacc aagattggaa
721 taggaaaccc ctccccacta tggatgactc caaattaaag aaggtagcta acatattcct
781 gtgtgctctg tcttcgctat tcaccaggcc cataaaagat ataataggga agctaaggcc
841 tcttaacatc ctcaacatct tagcctcatg tgattggact tttgcaggca tagtggagtc
901 cctgatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gattgccccc ttactcggtg actacgagct acaaggacct gaggaccttg cagtggagct
1021 cgtccccgta gtgatggggg gaattggttt ggtgctagga ttcaccaaag agaagattgg
1081 gaaaatgttg tcatctgctg catccacctt aagagcttgt aaagaccttg gtgcatatgg
1141 gctagagatc ctaaagttgg tcatgaagtg gttcttcccg aagaaggagg aagcaaatga
1201 attggctata gtgagatcta tcgaggatgc agtcctggat ctcgaggcaa ttgaaaacaa
1261 ccatatgacc accttgctca aagacaaaga cagtctggca acctatatga gaacccttga
1321 ccttgaggag gagaaagcca ggaaactctc aaccaagtct gcctcacctg acatcgtggg
1381 cacaatcaac gcccttctgg cgagaatcgc tgctgcacgc tctctggtgc atcgagcgaa
1441 ggaggaactt tccagcagac caagacctgt agtattgatg atatcaggca gaccaggaat
1501 agggaagacc caccttgcta gggaaatggc taagagaatc gcagcctccc ttacaggaga
1561 ccagcgtgta ggcctggtcc cacgcaatgg cgtcgaccac tgggatgcgt acaaggggga
1621 gagggtcgtc ctatgggacg attatgggat gagcaatccc attcacgatg ccctcaggtt
1681 gcaagaactc gctgacactt gccccctcac tctaaactgt gacaggattg agaacaaagg
1741 aaaggtcttt gacagcgatg tcatcattat caccactaat ctggccaacc cagcaccact
1801 ggactatgtc aactttgaag catgctcgag gcgcatcgac ttcctcgtgt atgcagaagc
1861 tcctgaagtc gaaaaggcga agcgtgactt cccaggccaa cctgacatgt ggaagaacgc
1921 cttcagttct gatttctcac acataaaact aacattggcc ccacagggtg gcttcgacaa
1981 gaacgggaac accccacacg gaaggggcgt catgaagact ctcaccactg gctcccttat
2041 tgcccgggca tcaggactac tccatgagag gttagatgaa tttgaactac agggcccaac
2101 tctcactacc ttcaatttcg atcgcaataa agtgcttgcc tttagacaac ttgctgctga
2161 aaacaaatat gggttgatgg acacaatgag agttgggaga cagctcaagg atgtcagaac
2221 catgccagaa ctcaaacaag cactcaagaa catttcaatc aagaagtgcc agatagtgta
2281 tagtggttgc acctatatac ttgagtctga tggcaagggc aatgtgaaag ttgatagagt
2341 tcagagcgcc tccgtgcaga ccaacaatga gctgactggt gccctgcacc atttgaggtg
2401 cgccaggatc agatactatg tcaagtgtgt ccaggaggcc ctgtattcca tcatccaaat
2461 tgctggggct gcgtttgtca ccacgcgcat cgtcaagcgc atgaacatac aagacctatg
2521 gtccaagcca caagtggaaa acacagagga gaccaccagt gaggacgggt gcccaaaacc
2581 caaagataat gaggagtttg tcatttcatc cgacgacatc aaaactgagg gtaagaaagg
2641 gaagaacaag actggccgcg gcaagaagca cacagccttt tcaagcaaag gtctcagtga
2701 tgaagagtac gatgagtaca agaggattag agaagaaagg aatggcaagt actccataga
2761 agagtacctt caggacaggg acaaatacta tgaggaggtg gccattgcca gggcgactga
2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttca ggccaacaag
2881 gaaacaacgc aaggaggaaa gagcttctct cggtctggtc acaggttccg aaattaggaa
2941 aagaaaccca gatgatttca aacccaaggg gaaactgtgg gctgacgatg acagaagtgt
3001 ggactataat gagaaactca gctttgaggc cccaccaagc atctggtcga ggatagtcaa
3061 ctttggttca ggttggggat tctgggtctc ccccagtctg ttcataacat caacccatgt
3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaattc aggtacacaa
3181 gtcaggcgag ttctgtcgct tgagattccc aaaaccaatc aggactgatg tgacaggcat
3241 gatcttagaa gaaggcgcac ccgagggcac cgtggtcaca ctactcatca aaaggtccac
3301 tggggaactc atgcccctag cagctaggat ggggacccat gcaaccatga agatccaagg
3361 gcgcaccgtt ggaggccaaa tgggcatgct tctgacagga tccaacgcca aaagcatgga
3421 tctgggtact acaccaggtg attgtggctg tccctacatc tacaagagag gaaatgacta
3481 tgtggtcatt ggagtccaca cggctgccgc tcgtggggga aacactgtca tatgtgccac
3541 ccaggggagt gagggagagg ctacacttga aggtggtgac aacaagggga catactgtgg
3601 tgcaccaatc ctaggcccag ggagtgcccc aaaacttagc accaagacca aattctggag
3661 atcgtccacg gcatcactcc cacctggcac ctatgaacca gcctatcttg gtggcaagga
3721 ccctagagtc aagggtggcc cttcactgca gcaagttatg agggaacagt tgaagccatt
3781 cacagagccc aggggcaagc caccaaagcc aagtgtgtta gaagctgcca agaagaccat
3841 catcaatgtc cttgagcaaa caattgatcc acctgagaaa tggtcattcg cacaagcttg
3901 cgcgtccctt gacaagacca cttccagtgg ccatccgcac cacatgcgga aaaacgactg
3961 ctggaacggg gagtccttca caggcaagct agcagaccag gcttccaagg ccaatctgat
4021 gtttgaagaa gggaagaaca tgaccccagt ctacacagct gcgctcaagg atgaattagt
4081 taaaaccgac aaaatttatg gtaagatcaa gaagaggctt ctctggggct cggacttggc
4141 gaccatgatc cggtgtgctc gagcattcgg aggcctaatg gatgagctca aagcacactg
4201 tgtcacactt cccattagag ttggtatgaa tatgaatgag gatggcccca tcatcttcga
4261 gaggcattcc aggtacacat atcactatga tgctgattac tctcgatggg attcaacaca
4321 acagagagcc gtgttggcag cagctctaga aatcatggtt aaattctccc cagaaccaca
4381 tttggctcag gtggtcgcgg aagaccttct ttctcctagc gtggtggacg tgggcgactt
4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc aatggaactc
4501 catcgcccac tggcttctca ctctttgtgc gctctctgaa gttacaaact tgtcccctga
4561 taccatacag gctaattccc tcttctcttt ttatggtgat gatgaaattg ttagcacaga
4621 cataaaattg gacccagaga aattgacagc aaagctcagg gaatatgggt taaaaccaac
4681 ccgtcctgac aaaactgaag gaccccttgt catctctgaa gacttgaatg gcctgacctt
4741 cctgcggaga actgtgaccc gcgatccagc tggttggttt ggaaaactgg agcagggttc
4801 aatactcagg caaatgtact ggactagggg ctccaaccat gaagacccat ctgaaacaat
4861 gattccacac tcccaaagac ccgtacaatt gatgtcccta ctgggggagg ccgctcttca
4921 cggcccagca ttctacagca aaatcagcaa gttagtcatt gcagagctaa aagaaggtgg
4981 catggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct
5041 tagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccacag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggcttt ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtgga gagtttacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttgggc cctgatttga
5341 atccctacct ttcccatttg gccagaatgt acaatagtta tgcaggtggt tttgaagtgc
5401 aggtaatcct cgcggggaac gcgttcaccg ccggaaaaat catatttgca gcagtcccac
5461 caaatttccc aactgaaggc ttgagcccca gccaggtcac tatgttcccc catataatag
5521 tagatgttag gcaactggaa cctgtgttga tccccttacc cgatgttagg aataatttct
5581 atcactacaa tcaatcaaat gaccccacca tcaaattgat agcaatgttg tatacaccac
5641 ttagggctaa taatgctggg gacgatgtct tcacagtttc ttgtcgggtt ctcacgagac
5701 catcccccga ttttgatttc atatttttag tgccacccac agttgagtca agaactaaac
5761 cattctctgt cccaatttta actgttgagg agatgaccaa ttcaagattc cccattcctt
5821 tggaaaagtt gttcacgggt cccagcagtg cctttgttgt tcaaccacaa aatggcaggt
5881 gcacgactga tggcgtgctc ctaggtacta cccaactgtc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccac attgcaggta ctcaagaata cacaatgaat ctggcctccc
6001 aaaactggaa caattatgat ccaacagaag aaatcccagc ccctctggga actccagatt
6061 tcgtgggtaa gatccaaggc gtgctcaccc aaaccacaag gagggatggc tcgacccgcg
6121 gtcacaaagc cacagtgagc actggaagtg tccacttcac cccaaagctg ggcagaattc
6181 aattctccac tgatacaagc aatgattttg aaactggcca aaacacgaga ttcaccccag
6241 tcggtgttgt ccaggatggt agcaccaccc accaaaatga accccaacaa tgggtactcc
6301 caaattattc aggtagagat agccacaatg tgcacctagc ccctgctgtg gccccctctt
6361 ttccgggtga gcaacttctt ttcttcaggt ccactatgcc cggatgcagc gggtatccca
6421 acatgaattt ggattgccta ctcccccagg agtgggtgca gcacttctac caagaggcag
6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttc
6541 tgtttgagtg taagcttcat aaatcaggct atgtcacagt ggctcacact ggccaacatg
6601 atttagttat cccccccaat ggctatttta ggtttgattc ctgggtcaac cagttctaca
6661 cacttgcccc catgggaaat ggaacggggc gtagacgtgc attataatgg ctggagcttt
6721 ctttgctgga ttggcatctg atgtccttgg ctctggactt ggttccctaa tcaatgctgg
6781 ggctggggcc atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaagcttc
6841 cttccaattt agcagcaacc tacaacaggc ttcctttcaa catgataaag agatgctcca
6901 agcacaaatt gaggccacca aaaagttgca acaggaaatg ataaaagtta aacaggcaat
6961 gctcctagag ggtgggttct ctgagacaga tgcagcccgt ggggcaatca gcgcccccat
7021 gacaaagact ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac
7081 atacaatgca ggccgctttt ccacccctca accctcgggg gcactgccag gaagaactaa
7141 tcttagggct gctgtccccg cctggggctc ctccagtaca ccttctaact cttctactgc
7201 tacttctgtg tactcaaatc aaactgcttc aacgagactt ggttctacag ctggttctgg
7261 taccagtgtc tcgagcttcc cgtcaactgc aaggactagg agctgggttg aggatcaaaa
7321 taggaatttg tcacctttca tgaggggggc ccacaacata tcgtttgtca ccccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagaagttt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga
7501 gtcacgggcg taatgtgaaa agacaaaatt gactatcttt ctttttcttt agtgtctttt
7561 aaaaaaaaaa aaaaa
//