Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MT010299 | GIX.1 | |
|
|---|---|---|---|
| GII.P15 |
ORF1: 1..4884
ORF2: 4865..6532
ORF3: 6532..7263
LOCUS MT010299 7263 bp RNA linear VRL 15-JUL-2020
DEFINITION Norovirus GIX isolate SCD1061_2 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MT010299
VERSION MT010299.1
KEYWORDS .
SOURCE Norovirus GIX
ORGANISM Norovirus GIX
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7263)
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JOURNAL Unpublished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 7263)
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..7263
/organism="Norovirus GIX"
/mol_type="genomic RNA"
/isolate="SCD1061_2"
/isolation_source="anal swab"
/host="Homo sapiens"
/db_xref="taxon:2594528"
/country="China: Shanghai"
/collection_date="18-Feb-2018"
/note="genotype: GIX.1[GII.P15]"
gene <1..4884
/gene="ORF1"
CDS <1..4884
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QHR97560.1"
/translation="MRVPSPPPNGEDAVRFVKETETIKGLPDLSTVENESEHSPYTVP
PLSEREHRPATEPLPGTILEMWDGEFYHYSIYVDNGKALGVHKPPAAISLATIDLTPI
SLYWRPVYTPPYLVHPETLKGLAGEKFPYTAFSNNCYNFCCWVLDLNDSWLNRRSITR
TTGFFKPYQSWNRKPLPTVDDGKIKKVANAVLCALGSLFSKPIKDLLGKLKPLNLLNL
LASCDWTFAGVVETVILAAELFNVFWTPPDVSNFIASIIGDFEMQGPEDLAVELVPVI
MGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAEME
TLRAIEDAVLDMEAIGNNHLTTLLKDKDSLSAYMKTLDMEEEKARRLSTKSSSPDIVG
TINAILARIAAARSLLHKAKEEMFSRARPVVVMVSGRPGIGKTYLARQLAKSIANSMS
GDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNTIKDALTLQELADTCPVTLNCDRI
ENKGKMFDSDVIIITTNLVNPAPLDYVNFEACCRRIDFLVYAEAPDIEKVKKDFPGQP
DMWRDHFKADSSHIKLSLAPQGGFDKNGNTPHGKGTMKTLTLHSLTARVMGLVCERKD
EFQLQGDELQVYNFDTNKVSAFRKLAADNKYSFVETMKVGAVLKNVKTLEDLKSALKG
VKFKECEIIYKGAKYRVASDGCGSVSVSKIKDVVSQTANEVHTALLRLRQARARYYIS
CFQDLIYTLIQVAGASFVVHRISKRFSWDRWIKPSDSPQEEEQPSSEVATGRWEIEPK
DTDPEGKKGKNKKGRGRKHTAFSSKGLSDEEYDEFKRIREEKNGKYSIEEYLQDRDRF
YEEVAVARATEEDFCEEEVAKIRQRIFRPTKKQRKEERGILGLVTGSEIRKRRPDDFQ
PKGNLWADDTRSVDYNEKLEFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKGL
KELFGVDIKQVQIHKSGEFCRFRFPRPIRPDVTGLILEEGAPEGTVCSILVKRPTGEM
IPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDIV
VAGVHTAAARGGNTVICATQGADGEAVLEGGEDKGTYCGAPILGLGKAPKLSTKTKFW
RSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMREQLKPFTEPRGKPPKPNVLDEAK
KTVMNVLEQTINPAKPWSYSQACASLDKTTSSGSPHHLRKNDHWNGESFTGPLADQAS
KANLMYEQAKHMSPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMVRCARAFGGLM
DSMKESCVMLPCRVGMNMNEDGPIIFDKHAKYKYHYDADYSRWDSTQQRSILSAAMEV
MVKFSAEPELAQVVAEDLLAPSQLDVGDFVVSVQEGLPSGVPCTSQWNSIAHWIITLS
AMAEVSGLSPDVIQAHSCFSFYGDDEIVSTDINLDPAKLTLKLREYGLVPTRPDKTEG
PLVITEDLHGLTFLRRHITRDPAGWFGKLDQDSILRQLYWTRGPNHENPYECMVPHSQ
RATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRWMRFSDLSTW
EGDRNLAPDGVNEDGVE"
mat_peptide <1..789
/gene="ORF1"
/product="p48"
mat_peptide 790..1887
/gene="ORF1"
/product="NTPase"
mat_peptide 1888..2409
/gene="ORF1"
/product="p22"
mat_peptide 2410..2808
/gene="ORF1"
/product="VPg"
mat_peptide 2809..3351
/gene="ORF1"
/product="Pro"
mat_peptide 3352..4881
/gene="ORF1"
/product="RdRp"
gene 4865..6532
/gene="ORF2"
CDS 4865..6532
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QHR97561.1"
/translation="MRMASSDAPVSGTDGAAGLVPESQQEVLPLEPVAGVQLAAPVAG
QSNIIDPWIRMNFVQAPAGEFTVSPRNAPGEVLIDLELGPELNPYLNHLARMYNGYVG
GMEVEVVLAGNAFTAGKILFAAVPPSFPTHGISAAQATMLPHVIVDVRQLEPVRLPLP
DVRNVMFHFCQENKEPRMRIVAILYTPLRANGAGDDVFTVSCRVLTRPSPDFDFIFLV
PPSVESKLKQFTLPNLQPNEMTNSRFPTGITQLYTSPNTNLVVQFQNGRCLLDGTLLG
TTPVRAADICSFRGVTSTEVDATDSPRVAGSHRIMVQLKEPDGEEFSPTGPNPAPVGT
PDFQAAIFGTLSQRNTGGAGQNSNRAHFAYFYTRNPTFAPGIGTVVFSFDTTDFQNRQ
PTKFSPSGVFDDDSSEPFNQFSLPYYNGSLGAVDAGKLAPPVAPNYPGEQILYFRGNI
PFKGGYGEGEIDSLLPQEWITHFYAEQAPTQGDAALLRYYNPDTGRVLFECKLHREGF
ITINYTGSNALAVPVNGVFRFEGWVNKFYTLTPMGNGNGRRGRRREL"
gene 6532..7263
/gene="ORF3"
CDS 6532..7263
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QHR97562.1"
/translation="MAGAFFAGLASDVLGSGLSSLIGAGANAINQKVEYDYNRHLQSA
SFQHDKDMLNSQVEATKHLQREMMAIKEGMLLKGGFSPTDAARGAVNAPMTQILDWNG
TRYWAPGAMKTTAYSGRFVSQSTHRPIPNVVHKSDGPIHQTGSTTGSISSLSTSSTRV
PSSTSSSSSASRTRDWVSEQQRLSPFMRGSLHTAYVTPPSSSASSVSSVSTVPHHVLD
SWTPSFNTKHLPLFAHVRKRGQSQV"
ORIGIN
1 atgcgtgtac cctctccccc cccaaacggt gaggacgcag tccgcttcgt gaaggaaacg
61 gagaccatca agggactgcc agatttgtcc accgtggaga acgaatctga acactccccg
121 tacacagtcc ccccgttgag tgagagggag cacagaccag caacagagcc attgcccggc
181 actatacttg aaatgtggga tggtgagttc tatcactact ccatatacgt ggacaatggc
241 aaggcccttg gtgttcacaa accaccagca gcaattagcc tagcaacgat agatttgaca
301 cctatatcgt tgtactggag accggtttac acaccgccgt accttgtcca cccagagacg
361 ctcaagggac tggctggcga aaagtttccc tacacggctt tcagcaacaa ctgctacaac
421 ttctgttgct gggttctgga cctcaatgat tcatggttaa accggagatc cataactaga
481 acaactggat tcttcaaacc ctaccaatcc tggaatagga aaccccttcc aactgtggat
541 gatggcaaga tcaagaaggt tgcgaatgca gttctgtgcg ccctaggatc acttttctcc
601 aagcccatta aggacctcct tggtaaatta aaacccctca atctcctgaa cttgcttgca
661 tcatgtgatt ggacctttgc tggcgtggtg gagacagtca ttcttgcagc agagctcttc
721 aatgtctttt ggactccacc tgatgtctcc aacttcattg cttccataat tggcgacttc
781 gagatgcaag gaccagagga tcttgctgtg gagcttgtcc ctgttatcat gggaggcatt
841 ggtatggtgt tgggattcac agctgagaag atagggcgta tgttatcatc tgcagcatcc
901 actctcaggg cttgtaagga ccttggcaat tacgccttag acatcctgaa actagtcatg
961 aagtggtttt tccctaaaaa ggaggaaaag gccgagatgg aaaccctgag ggccattgag
1021 gacgctgtcc ttgacatgga ggcaattgga aacaaccatc tcacaacact gctcaaagac
1081 aaagatagct tgagcgccta catgaagacc ttagacatgg aggaggagaa ggctaggagg
1141 ctctccacta aatcatcatc acccgacatt gttggcacca tcaacgcgat cctcgcacgc
1201 attgctgccg caagatcact cctacacaaa gccaaagagg aaatgttcag tcgagcgagg
1261 cctgttgtcg ttatggtttc tggaaggccc ggcatcggga agacatatct ggctagacag
1321 cttgccaaat cgattgcaaa cagcatgagt ggcgatcaga gagtgggact cgtcccccgc
1381 aatggggttg accactggga tgcttatagg ggtgaaagag ttgtcctatg ggatgactat
1441 ggcatgggaa atacaatcaa agatgcccta accctacaag agttggctga cacctgccca
1501 gttaccctca actgtgacag gattgaaaac aaggggaaga tgtttgacag tgatgtcatc
1561 ataataacaa ccaatcttgt caaccccgct cccctcgatt atgttaattt tgaggcttgc
1621 tgtaggcgaa ttgacttcct tgtttatgcc gaggcaccgg acattgagaa agtcaaaaag
1681 gatttccctg gacaacctga catgtggcgt gatcatttca aagctgactc gtcacacata
1741 aagttatcac tagccccaca gggtggtttt gacaagaacg gaaacacccc tcacgggaag
1801 ggcaccatga aaactctcac gctacactca ctcactgcac gtgtgatggg tttagtgtgt
1861 gagaggaagg atgaattcca actgcagggt gatgaactac aggtttataa ctttgacaca
1921 aacaaggtct ctgcatttag gaaactagca gctgacaaca agtacagttt tgtggagaca
1981 atgaaagtcg gtgcagtcct caagaacgta aaaactctgg aagatctgaa atctgccctc
2041 aagggagtca aattcaaaga gtgtgaaata atctacaagg gggccaagta cagagtcgcc
2101 tcggatggtt gtggcagtgt ctcagtttcc aagatcaagg atgttgtgtc gcagacagcc
2161 aatgaagtgc acacagcgct cctgagattg aggcaagccc gggccaggta ttacatcagc
2221 tgcttccaag acctcatata caccctgata caggttgctg gagcctcatt tgtggtgcat
2281 aggatctcaa agagattctc atgggatcgc tggatcaagc ccagtgatag ccctcaggag
2341 gaagaacaac ccagcagtga ggtggccaca gggagatggg aaattgagcc aaaagacaca
2401 gaccctgaag gcaaaaaggg taaaaataag aaaggaaggg gaaggaaaca cacggctttc
2461 tctagcaagg gtcttagtga tgaagagtat gatgagttca aaagaattag agaggaaaag
2521 aacggcaaat actccataga agaatacctc caggaccgtg acagatttta cgaggaagtg
2581 gcagttgcaa gggcaacgga agaggacttc tgtgaggaag aagtggcaaa gatcagacag
2641 agaatcttca ggcccacaaa gaagcagagg aaggaggagc ggggcattct agggctggtc
2701 actggttcag aaattaggaa gagaagacca gatgactttc agcccaaagg caacttgtgg
2761 gctgacgaca ccaggagcgt ggactacaac gaaaagctgg agtttgaggc ccctccaagc
2821 gtgtggtcac gtatcgtacc cctcggcact ggctggggtt tctgggtctc ctccaacctt
2881 ctcataacaa caacacacgt cctgccaaaa ggattgaagg agctgttcgg ggttgacatc
2941 aaacaagtcc agatacataa gtcaggtgag ttctgcaggt tcaggtttcc aagaccaatc
3001 agaccagatg tcacaggcct catccttgaa gaaggggccc ctgaaggcac ggtgtgttcc
3061 atccttgtca aaagaccgac tggagagatg ataccacttg cagtgaggat gggtacccac
3121 gcctccatga aaatccaggg tagaacggtt ggtggtcaaa tgggcatgtt gcttacagga
3181 gccaacgcta agaacatgga tttgggtacc ggccccgggg attgtggttg cccgtatata
3241 tacaagaggg gcaatgacat cgtggtggct ggggtccaca ctgcggctgc gcggggtggc
3301 aacactgtga tctgtgccac gcaaggagct gacggagagg ccgtccttga aggaggagag
3361 gacaaaggga cgtactgtgg tgccccaata cttggacttg ggaaggcccc caaactcagt
3421 accaagacaa aattctggcg gtcctcccct gatgcgcttc ccccgggaac gtatgagcca
3481 gcatacctag gtggaaagga cccaagggtt gagaagggcc cgtcactcca gcaggtcatg
3541 agagaacaac ttaaaccttt caccgaaccc agaggaaaac ccccaaaacc caacgttctt
3601 gatgaggcaa agaaaactgt gatgaacgtg ttggagcaga ctataaaccc tgccaaaccc
3661 tggtcatact cccaagcatg tgcttcgctt gacaagacaa cttcaagtgg tagcccgcac
3721 cacctgagaa agaatgatca ttggaatggt gaatctttta ccggtccttt ggccgatcaa
3781 gcttcaaaag caaacctaat gtatgaacag gcaaaacaca tgagccccgt ttacactgca
3841 gccctcaaag atgagctggt taagactgat aagatttaca agaaaataaa gaagaggctg
3901 ctgtggggtt ctgacctggg taccatggtc aggtgtgcca gggcttttgg tgggttgatg
3961 gatagcatga aagagagttg tgtgatgtta ccctgcagag ttggcatgaa catgaatgaa
4021 gatgggccaa tcatttttga caaacatgca aagtacaaat atcactatga tgcagattac
4081 tccagatggg actccacaca acaaaggagc atcttatctg ctgccatgga ggttatggtg
4141 aagttctcag ctgaaccaga gctggcacaa gtggtcgctg aagacttgct cgccccaagc
4201 caactcgacg tgggcgattt tgtggtgtca gtccaagaag gtctcccctc aggtgttccg
4261 tgcacttccc aatggaactc catagcacat tggatcatta cccttagtgc aatggcagaa
4321 gtttctggtc tctccccaga tgtgatccaa gctcactcat gcttctcttt ctatggtgat
4381 gatgagatag ttagcacaga catcaacttg gacccagcaa aactaacctt aaaactcagg
4441 gaatatggat tggtccccac cagaccagac aaaactgaag gcccattagt catcacagag
4501 gacctccatg ggttgacctt tctacgcaga cacatcacac gagatcctgc tgggtggttt
4561 ggaaaattag accaggattc aatcttaagg cagctctatt ggactagagg acctaaccat
4621 gagaacccct acgaatgcat ggtcccacac tcacagcgcg caacccagtt aatggcgctg
4681 ttgggtgagg catcattgca cggtccccag ttctacaaga aagtcagcaa gatggttatc
4741 aatgaaatta agagtggtgg tctggaattt tacgtgccca gacaggaggc catgttcagg
4801 tggatgagat tctctgacct cagcacgtgg gagggcgatc gcaatctggc tcccgacggt
4861 gtgaatgagg atggcgtcga gtgacgcgcc cgtttctggc accgatggtg cggcaggact
4921 cgtcccagag agtcaacaag aagtcttgcc tttagagccc gtcgcgggag ttcagctggc
4981 tgctcccgta gcagggcaaa gtaatataat tgacccctgg attagaatga attttgtgca
5041 agccccggcc ggtgagttca ctgtttcccc tcggaacgca ccgggtgagg tgcttattga
5101 tttggaatta ggaccagaat taaatcccta tctcaatcac cttgcaagaa tgtacaatgg
5161 gtatgtggga ggaatggagg tggaagttgt ccttgccggg aatgcgttca cggcgggtaa
5221 gatcttattc gcagctgtgc cccccagctt cccaacccat ggcatttctg cagcacaggc
5281 tactatgttg ccacatgtga tcgtggatgt caggcagctg gagcctgtcc ggctccctct
5341 tcctgatgtc aggaatgtga tgttccattt ctgtcaagaa aataaggagc cgcgcatgag
5401 aattgtggca atattgtaca cccctctccg tgccaacggt gcgggtgatg atgttttcac
5461 tgtctcatgt cgtgtgctaa caaggccctc accagatttt gattttattt tcttggtccc
5521 cccctctgta gagagtaagc tgaaacagtt tacccttcca aacctgcagc caaatgaaat
5581 gaccaattca agattcccca ctggtatcac acaactctac accagtccaa ataccaattt
5641 ggttgtccag ttccaaaatg gcaggtgtct gcttgatggc acacttctcg gcaccacccc
5701 tgttagagct gctgacatct gcagtttcag aggagtcact tcaactgaag ttgatgcaac
5761 tgacagtccc agagtagcag ggtcgcatag gattatggtg cagctcaagg agccagatgg
5821 agaggagttt tcacctacag gtcccaaccc tgcccctgtt ggcactccgg actttcaagc
5881 agccatattt ggcaccctta gtcaaagaaa cactggtggg gctgggcaga attccaacag
5941 agcccacttt gcatactttt acactagaaa ccccacattt gcaccaggca tagggacagt
6001 tgtgttttct tttgatacta ctgattttca gaatcgccaa cctactaaat tctctccttc
6061 tggtgtgttt gatgatgatt cttctgaacc ttttaatcaa ttttctctac catattataa
6121 tggatcactc ggtgcagtgg atgctgggaa actagctccg cctgtagcac ccaactaccc
6181 aggtgagcag attctttatt ttagagggaa cattcccttc aaaggtgggt atggagaggg
6241 tgaaattgat agcttgcttc cccaggaatg gatcacccac ttttatgcag agcaggctcc
6301 tacacaaggt gacgcagccc tgctgcgtta ctacaaccct gacactggta gagttctctt
6361 tgagtgcaaa ctccaccgcg agggattcat tacaatcaat tacacaggat ccaatgctct
6421 tgctgtacca gtcaatggag tcttcaggtt tgagggctgg gttaataaat tctacacact
6481 gacccccatg ggaaatggca acggccgcag gggtagaaga agggaattat aatggctgga
6541 gctttcttcg caggtcttgc ttctgatgtt ctcggcagcg gtttgtcttc acttatcggt
6601 gccggtgcca atgccataaa tcaaaaggtt gaatatgatt acaataggca cttgcagtca
6661 gcttctttcc aacatgataa ggatatgctc aactcacagg tggaagccac aaagcactta
6721 caaagggaga tgatggccat caaggaaggc atgctgctca agggtgggtt ctcccccact
6781 gatgcagcaa gaggagctgt caacgcccct atgacacaaa tcttggattg gaatggcacc
6841 agatattggg ccccgggtgc gatgaaaacc acggcttact caggccgttt tgttagtcaa
6901 tccactcata ggcctattcc caatgttgtg cacaagagtg atggacccat acaccaaact
6961 gggtcaacca cagggtccat ttcttctctc tccacatcat ccacccgtgt tccatcatcc
7021 acatcctcat ctagtagtgc ttctagaaca agggactggg tgtctgaaca gcaaagactc
7081 agccctttca tgagaggctc tcttcacact gcatatgtga ctcctccctc aagctctgcc
7141 tcttcagtaa gctctgtttc tacagtccca caccatgttt tagattcatg gaccccttct
7201 tttaacacta aacatttacc tttgtttgct catgttagga aaagggggca atctcaagtt
7261 taa
//