Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MT008459 | GI.7 | |
|
|---|---|---|---|
| GI.P7 |
ORF1: 85..5388
ORF2: 5372..6991
ORF3: 6991..7638
LOCUS MT008459 7660 bp RNA linear VRL 15-JUL-2020
DEFINITION Norovirus GI isolate SCD1061_3 nonstructural polyprotein (ORF1),
VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MT008459
VERSION MT008459.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7660)
AUTHORS Zhang,Z., Wang,D., Liu,D., Zhang,Z. and Wu,Q.
TITLE Whole Genome Analysis for Co-Infected Different Genotypes of Human
Norovirus
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7660)
AUTHORS Zhang,Z., Wang,D., Liu,D., Zhang,Z. and Wu,Q.
TITLE Direct Submission
JOURNAL Submitted (28-JAN-2020) School of Agriculture & Biology, Shanghai
Jiao Tong University, 800 Dongchuan Rd. Minhang Dist, Shanghai
200240, China
COMMENT ##Assembly-Data-START##
Assembly Method :: CLC genome workbench v. 12
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7660
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="SCD1061_3"
/isolation_source="asal swab"
/host="Homo sapiens"
/db_xref="taxon:122928"
/geo_loc_name="China: Shanghai"
/collection_date="18-Feb-2018"
/note="genotype: GI.7[P7]"
gene 85..5388
/gene="ORF1"
CDS 85..5388
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QHR93641.1"
/translation="MAKLKERISSQRGEGTTRIKNTEMALELIRRSQTPSPTRPDPPP
KSQRDRPPRTVSEVKQALGWGDSAHKDYGARAWCDLTAEEKKEILDNNERLFDAGGVT
PSTVPSTFERCETLEQTNDNHPVRWNESTGVNLGVGPLTTVAGPVWNMCPLPPIDSRN
NGPANEPRIGDMIEFYEGHIFHYAIYLGQGKTIGVHAPRAAFSIARITIHPITAWWRV
CYEPTDHQRLSYDQLKELENEPWPYASITNNCYEFCCRVMSLDDSWLQRKLVTSGRFN
HPTQEWSRDTPDFHQDSKLEIVRDAILSAINGLVSQPFKNILSKIKPLNLLSLLSNCD
WTFMGVVELVVLMAELFDIFWTPPDVSNFIASLLPDFHLQGPEDLAKDLVPLILGGIG
LAIGFTRDKITKVMKSAVDGLRSATQLGQYGLEIFSIIKKYFFGGDQTEKTLKGIENA
VIDMEVLSSTNVTQLVRDKKLAKTYMNILDNEEEKARKLSVRSADPHVVTTVNNLISR
ISMARSALAKAQAEMTSRARPVVIMMCGPPGIGKTKAAEHLANRLAGEIRPGGKVGLV
PRESIDHWDGYHGEEVLLWDDYGMSKITEDCNKLQAIADTAPFTLNCDRIENKGMQFV
SDAIIITTNAPGPAPVDFVNLGPVCRRVDFLVYCTAPEIEQTRRTHPGDTNAIKDLFK
PDFSHLKMEIAPQGGFDNQGNTPFGRGTMKPTTLNRLLIQAVALTMERQDEFQMQGAV
YNFDEDRVTAFTSLARANGLGLLSMATLGKRLRSVNNMEGLRNALKGYKINECDIVWN
NRTYTIKGDGSNVSITEKQVAASLQQQAVSSVTLALSRLRAARALAYASCFQSAVVTI
LQMAGSAVVISRAVKRMFGTHTNQPALEGKPKEHNCRVHRAEREGHGPIGHDGIIERY
GLCESDQDEEKIVMEVPTADKEGKNKGKNKKGRGRKNNYNAFSRRGLSDEEYEEYKKV
REEKGGNYSIQEYLEDRQRYEEELAEVQAGGDGGIGETEAEIRHRVFYKSKSGMRKQR
QEERRQLGLVTGAEIRKRKPIDWTPPKNDWSEDTREVNYDEHISFEAPPSIWSRVVKF
GSGWGFWVSSTVFITTTHVIPPDVREVFGEKLSDIAIHRVGEFTQFRFSKKMRPDLSG
MVLEEGCPEGTVCTIMVKRDSGELLPLAVRMGAVASMKIQGKLMHGQSGMLLTGANAK
GMDLGTIPGDCGAPYVHKRGNDWVVCGVHAAATKSGNTVVCAIQSGEGEATLEGGGQN
KGHYAGHPILRYGNGPSLSTKTKFWKSTPQPLPPGTYEPAYLGGRDPRVEGGPSLQQV
LRDQLKPFAEPRGRMPEPSLLEAAVETVTNVLEQTMDTPVPWSYSDACMSLDKTTSSG
FPHHKRKNDDWNGSAFVRELGEQAAHANNMYELGKSVKPVYTAALKDELVKPEKVYTK
IKKRLLWGADLGTVIRAARAFGPFCEAIKPHVIKLPIKVGMNAIEDGPLIYAEHAKYK
YHFDADYTAWDSTQNREIMLESFNIMCKLTADPSLAAIVAQDLLSPSEMDVGDYVISV
KDGLPSGFPCTSQVNSINHWIYTLCALSEVTGLAPDVLQSQSYFSFYGDDEIVSTDVE
FDPTKLTQVLREYGLKPTRPDKSEGPIIVKHQIDGLVFLRRTISKDAAGYQGRLDRNS
IERQLWWTRGPNHDDPFETLIPHQQRKIQLISLLGEAALHGEKFYRKIANRVIQEVKE
GGLELYIPGWQAIFRWMRFHDLSLWTGDRNLLPDYVNDDGV"
mat_peptide 85..1206
/gene="ORF1"
/product="p48"
mat_peptide 1207..2295
/gene="ORF1"
/product="NTPase"
mat_peptide 2296..2892
/gene="ORF1"
/product="p22"
mat_peptide 2893..3312
/gene="ORF1"
/product="VPg"
mat_peptide 3313..3855
/gene="ORF1"
/product="Pro"
mat_peptide 3856..5385
/gene="ORF1"
/product="RdRp"
gene 5372..6991
/gene="ORF2"
CDS 5372..6991
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QHR93642.1"
/translation="MMMASKDAPSNMDGTSGAGQLVPEVNAAEPLPLEPVVGAATAVA
TAGQVNLIDPWIMNNFVQAPEGEFTISPNNTPGDILFDLQLGPHLNPFLQHLSQMYNG
WVGNMRVRVMLAGNAFTAGKIIICCVPPGFSSQNISIGQATMFPHVIADVRVLEPIEI
PLDDVRNVLFHTNESRPTMRLLCMLYTPLRAGGASSGTDPFVIAGRVLTCPSPDFNFL
FLVPPSVEQKTRQLTVPNIPLNNLANSRVPAMINKMTISTDQSQVVQFQNGRCTLEGQ
LLGTTPVSASQVARIRGKVFSTASGKGLNLTELDGTPYHAFESPAPLGFPDIGACDWH
VSTFKVDQNLSGDPMSRLDIKQNAPFAPHLGSIEFTSDQEPTGDQLGTLAWVSPSTSG
ARVDPWKIPSYGSTVTESTHLAPPIFPPGFGEAIVYFMSDFPIVSGNTAQVPCTLPQE
FVSHFVEQQAPIRGEAALLHYVDPDTHRNLGEFKLYPDGFITCVPNTGGGPQNLPING
VFVFSSWVSRYYQLKPVGTAGPARRLGVRRV"
gene 6991..7638
/gene="ORF3"
CDS 6991..7638
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QHR93643.1"
/translation="MAQAIIGAIAATAAGSAVGAGIQAGTEAALQYQRFQQDLTLQEN
SFKHDERMLGLQIEGSNALLQKNLSTRYNLLVGAGLSSADAARSIVGAPVTKIVDWNG
VRIAAPMSTATTLRSGNFMSIPVTPRKESQNLSARSVGLTNPNYDSSTMISRTTQWVE
SQNSARNLSPFHSSALRTTWVTPPGSTSTSTFSTVSSVPRFFNTERLPLFANNRK"
ORIGIN
1 atggcgtcta acgacgctat taccgctgct gatgtcagca aacaaaatgc taacaccaac
61 aacgaaaata tcggttctcg cctcatggcg aaactgaagg agcgtataag ctcccaacgt
121 ggtgaaggca ccacaaggat taaaaacact gaaatggcat tggaattaat acgtaggtcc
181 caaacaccat ccccaacacg cccagatccc cctcctaaat cgcagcgtga tcgccctcca
241 agaactgtat cagaagtcaa acaagcttta ggttggggtg attccgccca taaggactat
301 ggggcccgag cgtggtgtga cctaacagct gaggaaaaga aagagatctt ggacaacaat
361 gagcgcctct ttgatgctgg cggtgtgact ccatcaacag taccgagcac ttttgagagg
421 tgtgagacac ttgaacaaac caatgataac catcctgtta gatggaatga gtctacggga
481 gtgaatctag gtgttggccc tctaaccaca gttgcaggtc cagtatggaa tatgtgtcct
541 cttccgccga ttgactcgcg caataatggc cctgcaaatg aaccacgtat tggggatatg
601 atagagtttt atgaagggca catatttcac tatgccatat accttggcca aggaaagacc
661 ataggggtcc acgccccccg agcagccttc tccatagcac gtatcaccat acatcctatc
721 acagcatggt ggcgtgtctg ctatgagccc acagaccatc aacgcctcag ctatgaccaa
781 ttgaaagagc ttgagaatga gccatggcct tatgcatcca taacaaacaa ttgctatgag
841 ttctgttgcc gcgttatgtc cctggacgac tcctggttgc agcgaaaact agtgacctct
901 ggcaggttta accaccctac tcaggaatgg tctagggaca caccggactt ccatcaagac
961 tcgaaattag agatagtgag agatgcgatt ctatctgcta taaatggcct agtctctcaa
1021 cctttcaaaa acattctttc aaagatcaag ccactaaatc tgttatccct gttatcaaat
1081 tgtgactgga cttttatggg ggtcgtcgag ctggtggtgt tgatggctga actgtttgat
1141 atcttctgga ccccccctga tgtttccaac ttcatagcgt ctcttttgcc tgatttccac
1201 ctgcaaggac cagaggattt ggctaaagat ctggttccac tgatattggg gggtattggc
1261 ttggccattg gcttcaccag agataagata acaaaagtca tgaagagcgc cgttgatggc
1321 ttgcgatcag ccacacagct cggacaatat ggcctcgaga tattctcaat cattaaaaag
1381 tatttctttg gtggagatca aaccgagaaa acccttaagg gcatagaaaa tgctgtcata
1441 gacatggaag tcttgtcgag caccaatgtc acccagttgg tgcgcgataa aaaattggct
1501 aagacctaca tgaacatcct agataatgaa gaagagaaag caagaaaact ttcagtacgt
1561 agtgctgacc cacatgttgt aacgacggtc aacaatctca tttcgcgcat atccatggcg
1621 cgttcagctc tcgccaaagc ccaagctgaa atgactagtc gggcgcgccc agtagtcata
1681 atgatgtgtg gaccaccagg cataggaaaa accaaagctg ctgagcactt agccaaccgt
1741 ttagctggtg agataagacc agggggcaaa gtggggctag tgcctagaga atccattgac
1801 cattgggatg gctatcatgg ggaagaagtt ctattgtggg atgactatgg catgtctaag
1861 ataacagagg attgcaacaa attgcaggcc atagctgaca ctgccccgtt cacactcaac
1921 tgtgacagga tagagaacaa aggcatgcaa tttgtgtcgg atgcaataat aataacaaca
1981 aatgcccctg ggccagcccc cgttgacttt gtcaaccttg gtccagtgtg tcgacgtgtg
2041 gacttcctgg tgtactgtac cgcccccgaa attgaacaga ctaggagaac ccatcccgga
2101 gacaccaatg ctatcaaaga cctgttcaaa ccagactttt cccaccttaa aatggagata
2161 gcaccacaag gggggtttga caatcaaggt aacaccccct ttgggagggg cactatgaag
2221 ccaaccacac ttaataggtt acttatacaa gctgttgcac taactatgga aagacaggat
2281 gagttccaaa tgcaaggggc ggtatataat tttgatgagg accgggtgac agctttcacc
2341 agtttggccc gagccaatgg actaggtctc ctgagtatgg caacacttgg aaaaagacta
2401 cggagtgtca acaacatgga aggacttcgc aatgctctca aggggtacaa gatcaatgag
2461 tgtgatattg tgtggaacaa tagaacttac accattaaag gggatggatc aaatgtgagc
2521 attactgaga aacaggtggc agcctctctc cagcagcaag ccgtcagctc agtaaccctg
2581 gcgctttcta ggttgcgcgc cgcgcgagcg ctggcgtatg catcttgctt tcagagcgca
2641 gtggttacca tcctacaaat ggccgggtct gcagtggtga tcagtagggc agtcaaacgt
2701 atgttcggga cccacacaaa ccagccggcc ctggagggca agcccaagga acacaactgc
2761 agagtccacc gtgctgaaag ggaaggccat ggacctattg ggcatgacgg catcatagaa
2821 cgatacggcc tgtgtgagag cgaccaggat gaggagaaga tcgtgatgga agtgccaact
2881 gctgacaaag agggcaaaaa taaaggcaaa aacaagaagg ggcgaggcag gaagaacaac
2941 tacaacgcct tctctaggcg aggcctgagt gatgaggagt atgaagaata taaaaaagtt
3001 agagaagaaa agggtggcaa ctacagcatc caagagtacc ttgaggaccg tcagcgttac
3061 gaagaagaac tcgctgaggt ccaagctggt ggagatggcg gaatcggtga gacggaggca
3121 gagatccgcc atcgggtctt ctataaatcc aaaagtggta tgcgtaaaca gcgccaagag
3181 gagcgccgac aacttgggct ggtcacgggt gctgaaatta ggaaacgcaa acccatagat
3241 tggacaccgc caaagaatga ctggtcggaa gatactaggg aagtcaacta tgacgaacac
3301 atcagttttg aagccccacc ctctatttgg agtagggtcg taaaatttgg cagtggatgg
3361 ggcttttggg taagttcaac agttttcatt acaaccacac acgtcatacc accagatgtt
3421 agagaagttt ttggtgaaaa gctctcagac atagcaatac acagagttgg ggaattcaca
3481 caatttagat tttccaaaaa gatgagacct gacctcagtg gtatggtatt ggaagagggt
3541 tgcccagaag gaactgtatg cactataatg gtgaagagag actcaggtga actactacca
3601 ttggccgtgc gcatgggagc tgtcgcatcc atgaagatac aaggaaagct tatgcacggt
3661 caatctggca tgctgctaac tggtgcgaat gcaaagggaa tggatctagg caccattcct
3721 ggtgattgtg gagctccata tgtacacaaa agaggaaatg attgggtagt gtgtggagtg
3781 cacgcagccg caaccaagtc aggcaacact gttgtttgtg caatacagtc aggtgaaggt
3841 gaagccactc ttgagggggg tgggcaaaac aaagggcatt atgcaggcca cccaatttta
3901 aggtatggta atgggccctc cctctctaca aaaaccaaat tttggaagtc aactccccaa
3961 cccctccccc ctgggaccta cgaaccagcc tacttaggcg ggcgtgaccc cagagtggaa
4021 ggcggaccat cactccaaca ggtcctacgt gatcagctca agccctttgc tgaaccccgt
4081 ggtaggatgc cagagccaag cttgctagaa gcggctgtgg agaccgtcac aaacgtctta
4141 gagcaaacca tggacacgcc tgtgccatgg agttacagcg acgcctgcat gtcgctagac
4201 aagactacta gctcaggctt tccacaccac aaacgcaaga acgatgactg gaatggcagt
4261 gcgtttgtgc gtgagcttgg tgaacaggca gcccatgcca acaacatgta tgaattaggc
4321 aaatcagtca aaccagttta cactgcagca cttaaagatg aattggtgaa acccgaaaaa
4381 gtgtatacaa agataaagaa aagactgctt tggggtgcag acctcggtac ggtcattcga
4441 gctgctcgag cctttggccc attctgtgaa gctataaaac cacatgtgat aaaattgccg
4501 attaaagtcg gcatgaatgc aattgaagat ggccccctca tatatgctga acatgctaag
4561 tataaatatc actttgatgc agattacaca gcttgggatt caacacagaa cagggagatt
4621 atgttagaat ccttcaacat catgtgtaag cttacagctg atccatcact ggctgccatt
4681 gtcgcacagg acttgttgtc cccgtcggaa atggacgtgg gggactacgt gatcagtgtc
4741 aaggatggtc tcccctcagg attcccatgc acctcacaag tgaatagcat aaaccattgg
4801 atttataccc tgtgcgccct ttcggaagtc acaggtttgg cccctgatgt tctgcaatcc
4861 caatcttact tttccttcta tggggatgat gaaattgtat caactgatgt ggaatttgac
4921 ccaacaaaac tcacccaagt gcttagagag tatggcttga aacccacgcg gcctgacaaa
4981 tcagaagggc ctatcatagt gaagcatcaa atagatgggt tggtttttct gaggcgcact
5041 atatcaaaag atgctgctgg ctaccaaggg cgcctggacc gcaattccat tgaaagacag
5101 ttatggtgga cccggggccc aaaccatgat gatccctttg agacattaat accccatcaa
5161 caaagaaaga ttcaattgat ttccttactt ggtgaggctg cgctccacgg agagaaattc
5221 tatagaaaga ttgccaacag agtcatacag gaagtcaaag agggaggcct tgagctctat
5281 ataccaggtt ggcaggccat attccgctgg atgcgtttcc atgacttgag cttgtggaca
5341 ggagatcgca atctcctgcc cgattatgta aatgatgatg gcgtctaagg acgccccctc
5401 aaacatggat ggcactagtg gtgccggtca gctggttcca gaggttaatg cagctgaacc
5461 cctacccctt gagccggtgg tgggtgccgc aactgcggtg gccactgctg ggcaagttaa
5521 tttaatagac ccctggatca tgaataattt tgtccaagcc cctgagggcg aattcactat
5581 ctcccctaac aatacccctg gagatatttt atttgatttg caattgggac cacatcttaa
5641 cccttttctc caacatctgt cccaaatgta taatggttgg gtgggaaaca tgagagttag
5701 agtcatgctc gcaggaaatg cgttcactgc tggtaaaatc ataatttgtt gtgtcccacc
5761 tggcttttca tcccaaaata tatcaattgg acaagccaca atgttcccac atgttatagc
5821 tgatgtgaga gtattagaac ctattgaaat cccccttgat gatgtacgca atgtcttgtt
5881 tcacactaat gaaagccgcc caactatgcg gttactctgt atgctgtaca cacccctccg
5941 cgctggaggc gcttcatcag gcacggaccc ttttgtcatt gcaggccgtg tcctaacctg
6001 cccttcccct gatttcaatt ttctgttcct cgtacctcct agcgtggaac agaagaccag
6061 gcaattgact gtacccaata tacccttgaa caatttggcc aactccagag tgcctgcaat
6121 gataaataag atgacaatct ccactgatca aagtcaggta gtccagttcc aaaatggtcg
6181 ttgcacactc gaggggcaac ttttgggcac aacccctgtc tcagctagtc aagtggcccg
6241 catacgcggt aaagttttct ccacagcatc tggaaaaggg ctcaatttaa ctgaattgga
6301 tgggaccccc tatcatgcat tcgagagccc agcccccctt ggttttcctg acataggggc
6361 ttgtgattgg catgtatcaa ctttcaaggt ggatcaaaat ctttcaggag accccatgtc
6421 caggctagat ataaaacaaa atgccccgtt tgcaccacat cttggttcca ttgaattcac
6481 ctctgaccag gaaccaaccg gggatcaatt gggcacacta gcttgggtct ccccttccac
6541 tagtggagct agggtcgatc cttggaaaat cccatcatat ggttcaactg taactgagtc
6601 cactcacctg gcaccaccta tctttccgcc aggttttggt gaagctatag tctatttcat
6661 gtcagacttt cccattgtgt caggcaacac tgctcaagtt ccctgtacct tacctcaaga
6721 atttgtttca cactttgtgg aacaacaggc accaattcga ggtgaagctg ccctattgca
6781 ttatgtagat ccagacaccc accgtaattt gggagagttc aaattgtacc ctgatgggtt
6841 tatcacctgt gtgccaaata caggcggtgg cccccaaaac cttcctataa atggggtttt
6901 tgtcttttct tcttgggttt ctagatatta tcaattaaag cctgtgggaa cagccggtcc
6961 ggccaggagg cttggtgtga gaagggtata atggctcaag ccattatagg agcaattgcc
7021 gccaccgctg ctggcagcgc agtgggggca ggtatccaag ctggcacaga agcagccctg
7081 caatatcaga gatttcaaca agatctcacc ctacaggaaa actcttttaa acacgatgag
7141 agaatgttgg gtttacaaat tgagggatct aatgctttat tacaaaagaa tctttccacc
7201 cgctataacc tattagttgg tgcaggtctt tcttcggctg atgctgcaag gtctattgtt
7261 ggggcccctg tgacaaaaat tgtggattgg aatggggtga ggattgccgc ccccatgtcc
7321 actgccacca ctctccgatc tggcaatttt atgagcatac cagtcacgcc gagaaaggag
7381 tcccaaaatc tgtcagcacg ttctgtaggt ctcactaatc ccaattatga ttcatctact
7441 atgatctcta gaacaaccca gtgggtggag tcacagaatt cagctagaaa tttatcacct
7501 tttcatagct cagccctaag gaccacatgg gtaactcctc ctggctctac ttctacttca
7561 actttttcta ctgtctcttc ggtgccacgg ttctttaaca ccgagcgcct tcccttgttc
7621 gcaaacaata ggaagtagtt tttgtaatat aatgtgggcg
//