Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MT008453 | GI.1 | |
|
|---|---|---|---|
| GI.P1 |
ORF1: 1..5217
ORF2: 5201..6793
ORF3: 6793..7431
LOCUS MT008453 7454 bp RNA linear VRL 15-JUL-2020
DEFINITION Norovirus GI isolate SCD1044_1 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MT008453
VERSION MT008453.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7454)
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JOURNAL Unpublished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 7454)
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..7454
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="SCD1044_1"
/isolation_source="asal swab"
/host="Homo sapiens"
/db_xref="taxon:122928"
/country="China: Shanghai"
/collection_date="18-Feb-2018"
/note="genotype: GI.1[P1]"
gene <1..5217
/gene="ORF1"
CDS <1..5217
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QHR93623.1"
/translation="MALGLIGQAPAPKATAVETPKQQRDRPPRTAAEVQQNLCWTEKP
LDQNVKAWDELDHTTKQQILDEHAEWFDAGGLGPSTLPSNHERHSNDDSGGHQVKWSA
KEGVNLGIGGLTTVPGPEWNMCPLPPADQRSTTPAVEPIIGDMIEFYEGHIYHYAIYI
GQGKTVGVHSPQAAFSITRITIQPISAWWRICYVPQPKQRLTYDQLKELENEPWPYAA
VTNNCFEFCCQVMCLDDTWLQRKLISSGRFHHPTQDWSRDTPEFQQDSKLEMVRDAVL
AAINGLVSRPFKDLLGKLKPLNVLNLLSNCDWTFMGVVEMVVLLLELFGVFWNPPDVS
NFIASLLPDFHLQGPEDLARDLVPVVLGGIGLAIGFTRDKVGKMMKNAVDGLRAATQL
GQYGLEIFSLLKKYFFGGDQTEKTLKDIESAVIDMEVLSSTSVTQLVRDKQSARAYMA
ILDNEEEKARKLSVRNADPHVVSSTNALISRISMARAALAKAQAEMTSRMRPVVIMMC
GPPGIGKTKAAEHLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMTKI
QEDCNKLQAIADSAPLTLNCDRIENKGMQFVSDAIVITTNAPGPAPVDFVNLGPVCRR
VDFLVYCTAPEVEHTRKVSPGDTNALKDCFKPDFSHMKMELAPQGGFDNQGNTPFGKG
TMKPTTINRLLIQAVALTMERQDEFQLQGPTYDFDTDRVSAFTKMARANGIGLIPMAS
LGKKLRGVSTIEGLKNALLGYKIAKCSIQWQSRVYIIESDGGNVHIKEDKQALTPSQQ
AINTASLAITRLKAARAVAYASCFQSAVTTILQMAGSALVINRAVKRMFGTRTAAMAL
EGPEKEHNCRVHKAKEAGKGPIGHDDMIEKFGLCETEEEESEDQIQMTPNDAIPEGKN
KGKTKKGRGRKNNYNAFSRRGLSDEEYEEYKKIREEKNGNYSIQEYLEDRQRYEEELA
EVQAGGDGGIGETEMEIRHRVFYKSKSRKHQQEQRRQLGLVTGSDIRKRKPIDWTPPK
NEWADDDREVDYNEKINFEAPPTMWSRVTKFGSGWGFWVSPTVFITTTHVVPTGVKEF
FGEPLTNIAIHQAGEFTQFRFSKKIRPDLTGMVLEEGCPEGTVCSVLIKRDSGELLPL
AVRMGAIASMRIQGRLVHGQSGMLLTGANAKGMDLGTIPGDCGAPYVHKRGNDWVVCG
VHAAATKSGNTVVCAVQASEGETALEGGDKGHYAGHEIVRHGNGPALSTKTKFWRSSP
EPLPPGVYEPAYLGGKDPRVQNGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVT
SMLEQTMDTPSPWSYADACQSLDKTTSSGFPYHKRKNDDWNGTTFVRELGDQAAHANN
MYENGKHMKPIYTAALKDELVKPEKVYQKIKKRLLWGADLGTVIRAARAFGPFCDAIK
PHVIKLPIKVGMNTIEDGPLIYAEHAKYKNHFDADYTAWDSTQNRQIMTESFSIMSRL
TASPELAEVVAQDLLAPSEMDVGDYVIRVKEGLPSGFPCTSQVNSINHWIITLCALSE
ATGLSPDVVQSMSYFSFYGDDEIVSTDIDFDPARLTQILKEYGLRPTRPDKTEGPIQV
RKNVDGLVFLRRTISRDAAGFQGRLDRASIERQIFWTRGPNHSDPSETLVPHTQRKVQ
LISLLGEASLHGEKFYRKISSKVIHEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDR
NLLPEFVNDDGV"
mat_peptide <1..1041
/gene="ORF1"
/product="p48"
mat_peptide 1042..2130
/gene="ORF1"
/product="NTPase"
mat_peptide 2131..2733
/gene="ORF1"
/product="p22"
mat_peptide 2734..3147
/gene="ORF1"
/product="VPg"
mat_peptide 3148..3690
/gene="ORF1"
/product="Pro"
mat_peptide 3691..5214
/gene="ORF1"
/product="RdRp"
gene 5201..6793
/gene="ORF2"
CDS 5201..6793
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QHR93624.1"
/translation="MMMASKDATSNVDGASGAGQLVPEANTSDPLAMDPVAGSSTAVA
TAGQVNPIDPWIINNFVQAPQGEFTISPNNTPGDVLFDLSLGPHLNPFLLHLSQMYNG
WVGNMRVRIMLAGNAFTAGKIIVSCIPPGFGSHNLTIAQSTLFPHVIADVRTLDPIEV
PLEDVRNVLFHNNDRNQQTMRLVCMLYTPLRTGGGTGDSFVVAGRVMTCPSPDFNFLF
LVPPTVEQKTRPFTLPNLPLSSLSNSRAPLPIGSMGISPDNVQSVQFQNGRCTLDGRL
VGTTPVSLSQVAKIRGTSNGTVINLTELDGTPFHPFEGPAPIGFPDLGGCDWHVNMTQ
FGHSSQTQFDVDTTPETFVPHLGSIQANGIGSGNYIGVLSWISPPSHPSGSQVDLWKI
PNYGSSVTEATHLAPSVFPPGFGEVLVFFMSKMPGPGAYNLPCLLPQEYISHFASEQA
PTVGEAALLHYVDPDTGRNLGEFKAYPDGFLTCVPNGASSGPQQLPINGVFVFVSWVS
RFYQLKPVGTASSARGRLGLRR"
gene 6793..7431
/gene="ORF3"
CDS 6793..7431
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QHR93625.1"
/translation="MAQAIIGAIAASTAGSALGAGIQVGGEAALQSQRYQQNLQLQEN
SFKHDREMIGYQVEASNQLLAKNLATRYSLLRAGGLSSADAARSIAGAPVTRIVDWNG
VRVSAPESSATTLRSGGFMSVPIPYTSKQKQIQPSGISNPNYSPSSISRTTSWVESQN
SSRFGNLSPYHTEALNTVWLTPPGSTASSTLSSVPRGYFNTDRLPLFANNRR"
ORIGIN
1 atggctctgg ggctaattgg ccaggcccca gctccaaagg ccacagccgt ggagacccct
61 aagcaacaga gggataggcc tccacggact gccgccgaag tccaacaaaa tttatgttgg
121 accgagaagc cgctagacca aaatgtcaag gcgtgggacg aattggacca cacaacaaaa
181 caacagatac ttgatgagca tgctgaatgg tttgatgctg gtggcttagg cccaagcaca
241 cttcctagca accatgaacg tcactcaaat gatgacagtg gaggccatca agtgaaatgg
301 tcggctaaag agggtgtgaa tctcgggata ggagggctta caactgttcc cgggcccgag
361 tggaacatgt gcccgctacc ccctgcagat caaaggagta cgacacctgc agtcgagccc
421 ataataggtg atatgatcga attttatgaa ggtcatatct accattatgc catttatatc
481 ggccaaggca agacagtggg tgtccactct cctcaagcag cattttcaat aacaagaatc
541 accatacaac ctatatcagc atggtggcgg atatgttatg tcccacagcc aaaacagaga
601 cttacatatg accaactcaa agaattggag aacgaaccat ggccatacgc tgcagttacc
661 aataactgct ttgaattctg ctgtcaggtc atgtgtctag acgacacttg gctacaaaga
721 aagctcatct cctctggacg gttccaccat ccaacccagg attggtctcg ggacactcca
781 gagttccaac aagacagcaa acttgagatg gtcagagatg cagtgctggc cgcgataaat
841 gggctagtgt cgcggccctt taaggatctc ctaggcaaac tcaaaccttt gaatgtgctc
901 aatttacttt caaattgtga ctggacattt atgggggtcg tggaaatggt ggtcctcctt
961 ttggagcttt ttggggtgtt ctggaaccca cctgatgtgt ctaacttcat agcttcactc
1021 ctaccagatt tccatctaca gggccctgaa gatcttgcta gagacctcgt gccagtggtc
1081 ttgggtggta ttggtctggc tataggattt actagggaca aggtgggtaa aatgatgaaa
1141 aatgctgttg acggactgcg ggctgcaact cagctcggac agtacggcct ggaaatattc
1201 tcactattaa agaagtactt ctttggtgga gaccaaacag agaagaccct gaaagatata
1261 gagtcagctg ttattgacat ggaagtgcta tcgtccacct cagtgaccca actcgtaagg
1321 gataagcaat ctgcgcgggc ttacatggct atcttggata atgaagaaga aaaagccaga
1381 aagctgtccg ttaggaatgc tgacccacat gtggtatcct ccaccaatgc tctcatatct
1441 cggatatcaa tggccagagc cgccctagcc aaggcccagg ctgagatgac tagtaggatg
1501 cgtcctgtgg ttattatgat gtgtgggccc cctggcatag gaaaaaccaa agcagcggaa
1561 catctggcca aacgattggc caacgagata cggcctggcg gcaaagttgg gctagttcca
1621 cgtgaggcag tggaccattg ggatggctat catggtgaag aggtgatgtt atgggatgac
1681 tatgggatga ccaaaataca ggaggattgc aacaaactac aggccatagc tgactcggcc
1741 cccttgacgc tcaactgtga ccgaatagag aacaaaggga tgcaattcgt atctgatgct
1801 atagtcataa ccaccaatgc ccctggccca gcccccgtag actttgtcaa cctcggacca
1861 gtctgccgga gggtggactt ccttgtgtat tgtacggcac cagaagtgga acacacaagg
1921 aaagttagtc caggcgacac taatgcacta aaggattgtt ttaaacctga tttctctcac
1981 atgaaaatgg aactggcccc ccagggtggt tttgataacc aagggaacac tccatttggt
2041 aagggtacaa tgaagccaac caccataaat agattgttaa tccaggctgt ggcattgaca
2101 atggagaggc aggacgagtt ccaactccaa ggtcctactt atgactttga cactgatagg
2161 gtctctgcat ttactaagat ggcccgagct aatgggatag gtcttatacc catggcctcc
2221 ctgggcaaga aattgcgtgg ggtttccacc attgaaggct tgaagaatgc ccttctagga
2281 tacaagatag caaagtgcag tatacagtgg cagtcaaggg tgtacatcat agaatcagat
2341 ggtggcaatg tacacatcaa ggaggacaag caggctctaa ctccttcaca gcaggcaatt
2401 aacacagcct ccctggccat cacacgactc aaggcggcta gggctgtagc ttacgcctca
2461 tgttttcaat ctgccgtcac caccatacta caaatggcag ggtctgctct ggtcatcaat
2521 cgggcagtta agcgcatgtt tggcacccgt acggcagcca tggcgctaga gggaccagaa
2581 aaggaacata attgtagggt tcataaagct aaggaagctg gaaaggggcc tataggacat
2641 gatgacatga tagaaaagtt tggtctgtgt gagactgaag aggaagaaag tgaagatcaa
2701 atccaaatga ccccaaatga tgccattcca gaggggaaga acaaaggtaa gaccaagaag
2761 ggccgcggcc gcaaaaataa ttacaatgca ttctcccgac gtgggttgag tgatgaggag
2821 tatgaagaat acaagaagat cagggaagag aagaatggta attacagcat acaagagtat
2881 ctggaggatc gtcaacggta cgaggaagag ttagcagagg ttcaagcagg tggtgacggt
2941 ggcataggag agactgagat ggagattcgc cacagagttt tctacaaatc caaaagcaga
3001 aaacaccaac aagagcagcg acgccaactt ggcctagtaa ctggatcgga catcaggaaa
3061 cgtaaaccta ttgactggac cccaccaaag aatgaatggg ccgatgatga tagggaagtt
3121 gactacaatg aaaagatcaa ttttgaggcc cccccaacaa tgtggagccg ggtcacaaag
3181 tttgggtcag ggtggggctt ctgggtcagt ccaaccgtgt tcatcaccac cacgcatgtg
3241 gtgccaactg gcgtgaagga attctttggc gaacccctca ccaacatagc aatccatcaa
3301 gcaggtgagt tcacacagtt caggttttcc aaaaagatac gccctgacct gacgggcatg
3361 gtgttggagg aagggtgccc tgaaggaaca gtctgttcag tcctgatcaa acgagactcg
3421 ggcgagcttc tccctctagc tgtccgtatg ggggctattg cctctatgag gatacagggc
3481 cgccttgttc atggccaatc aggaatgctg ctgacaggag cgaatgcaaa aggaatggac
3541 cttggaacta taccaggtga ctgtggggca ccatacgtcc acaagcgcgg taatgactgg
3601 gtcgtgtgtg gggtccatgc tgcagccaca aaatcaggta acactgtggt ctgtgctgtg
3661 caggctagtg aaggtgagac cgcattagaa ggcggagaca aggggcatta tgcgggtcat
3721 gaaattgtaa ggcacgggaa tggcccagca ttgtcaacta aaacaaagtt ctggagatcc
3781 tccccagagc cattgccccc tggtgtttat gagcctgcat acctaggagg aaaggaccct
3841 cgtgtccaaa atggcccctc cctccaacag gttctgcgtg accaattgaa acccttcgca
3901 gaaccccgtg gtcgcatgcc tgagcccggt ttgctggagg cagcagttga aactgtaaca
3961 tccatgttag agcaaacaat ggatactcca agcccatggt cttatgctga tgcttgtcaa
4021 tctcttgata aaactacaag ttcaggcttt ccctaccaca agaggaagaa tgatgattgg
4081 aacggcacca cctttgtcag ggagcttggc gatcaggccg cacatgctaa caacatgtat
4141 gagaatggta aacacatgaa acccatctac acagcagctt tgaaggatga gctagtcaaa
4201 cccgaaaagg tctaccaaaa gatcaaaaag cgcctgttat ggggtgctga tctcgggact
4261 gtaatcagag ctgcccgagc ttttggccca ttttgtgatg ctataaagcc acatgtcatt
4321 aagctaccaa taaaggttgg tatgaacaca atagaagatg gccccctaat ttatgctgag
4381 catgccaagt acaaaaacca ctttgacgcg gattatacgg catgggattc aacacagaac
4441 agacaaatta tgacagaatc tttctccatt atgtcacgcc ttacggcctc ccccgagttg
4501 gccgaagtcg tggctcagga tttattggca ccatctgaga tggatgtggg tgactatgtc
4561 ataagagtta aggaaggctt accatctggg ttcccgtgta cttcccaagt gaacagcata
4621 aatcattgga taattactct ctgtgcactt tctgaagcca ctggtctgtc acctgatgtg
4681 gtgcaatcaa tgtcatattt ttcattttat ggtgatgatg agattgtgtc aactgacata
4741 gattttgacc cagcccgtct cacccaaatc cttaaggaat atggccttag accaacaagg
4801 ccagacaaaa ctgaaggacc aatacaggtc aggaaaaatg tggatggatt agttttcttg
4861 cgccgcacca tctcccgcga cgctgcaggg ttccagggca gattggacag ggcctcaatt
4921 gaacggcaga ttttctggac ccgcgggccc aatcattcag atccttcaga gaccttagta
4981 ccacacaccc aaagaaaagt gcaattgatc tcactattgg gagaggcttc acttcatgga
5041 gaaaagttct acagaaagat ctccagcaaa gtcatacatg aaatcaagac tggtggattg
5101 gagatgtatg ttccagggtg gcaggccatg tttcgctgga tgcgcttcca tgacctcgga
5161 ttgtggacag gagatcgcaa tctcctgccc gaattcgtaa atgatgatgg cgtctaagga
5221 cgctacgtca aacgtggatg gcgccagcgg cgctggtcag ttggtaccgg aggctaatac
5281 ttctgacccc cttgcaatgg atcctgtggc gggttcttcg acagcggttg cgactgctgg
5341 acaagtaaat cccattgatc cttggataat taacaatttt gtgcaagctc cccaagggga
5401 atttacaatc tccccaaata atacccccgg tgatgtttta tttgatctga gtttaggtcc
5461 ccatcttaac cccttcttgc tacatctgtc acaaatgtat aatggttggg ttggcaacat
5521 gagagttagg attatgctgg ctggtaatgc tttcactgca ggtaagatca tagtctcctg
5581 tatacctcct ggttttggat cgcataatct cactatagca caatcaactc tgtttccaca
5641 tgtgattgct gatgttagga ctctagaccc tatagaagtg cctttggaag atgttagaaa
5701 tgttcttttc cataataatg ataggaatca gcaaaccatg cgccttgtgt gcatgttgta
5761 cacccctctc cgcactggtg gcggtacagg tgattccttt gttgtggcgg ggcgggtcat
5821 gacctgccct agtcctgatt ttaatttctt gttcctggtt ccccccacag ttgagcagaa
5881 aactagacct ttcacccttc caaatttgcc tttgagctct ttgtccaatt cacgcgctcc
5941 tcttccaatt ggcagcatgg gcatctctcc agacaatgtc cagagtgtac agtttcaaaa
6001 tggtcgatgt actttggacg gtcgtttggt tggcactacc ccagtttcac tgtcccaggt
6061 tgctaagata aggggcactt caaatggtac tgtcattaac cttaccgaac tggatggtac
6121 accttttcac ccttttgagg gccctgcccc cattggattc ccagatctcg gtggttgtga
6181 ttggcacgtt aatatgacac agtttggcca ctctagtcag acacaatttg atgtggatac
6241 cacccctgaa accttcgtcc ctcatttggg atcaatccag gcaaatggta ttggtagtgg
6301 caattatatt ggtgttctca gttggatctc ccctccatca catccctctg gttcccaggt
6361 agatctttgg aagatcccca actatgggtc gagtgttact gaggcaacac atctggcccc
6421 atcagttttc ccacccggct tcggggaagt gttggttttc ttcatgtcaa agatgccagg
6481 gcctggcgcc tacaatctgc cctgtttgct gccacaagag tacatctcac attttgcaag
6541 tgaacaagcc cccactgtgg gtgaggctgc tctactccat tatgttgatc ctgacacagg
6601 gcggaacctt ggggagttca aagcataccc cgatggattc ctcacttgtg tccccaatgg
6661 agccagctcg ggtccacaac aattaccaat caatggggtt tttgtttttg tctcttgggt
6721 gtctaggttc tatcaattga agcctgtggg aactgccagc tcggcaagag gtaggcttgg
6781 actgcgccga taatggccca agctataatt ggtgcaattg ctgcctccac agcgggcagt
6841 gcccttgggg caggcataca ggttggtggt gaggcagcac tccaaagtca aagataccaa
6901 cagaatctac aactgcaaga gaattccttt aagcatgata gagaaatgat tggatatcag
6961 gtagaggctt caaatcaatt gctagccaag aatctggcaa ccagatactc actcctccgt
7021 gctggaggcc tatccagtgc tgatgcggca aggtccatag cgggagcccc agtgacccga
7081 atcgtggact ggaacggtgt gagggtgtca gcccctgagt cttctgcaac cacattgagg
7141 tctggtggct ttatgtcggt gccaatacca tacacatcta aacagaaaca aattcaacca
7201 tctggcatta gtaatccaaa ttattctcct tcttccattt ctcgaaccac tagttgggtt
7261 gaatcacaaa attcatcaag atttgggaat ttatccccat accacacaga ggccctcaat
7321 acagtgtggt tgaccccacc tggctcaaca gcatcctcca cgctgtcttc tgtgccacgt
7381 ggctatttca atacagatag attgccattg ttcgcaaaca ataggcgata atgttgtaat
7441 atgaaatgtg ggcg
//