Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MT008455 | GI.3 | |
|
|---|---|---|---|
| GI.P13 |
ORF1: 1..5316
ORF2: 5300..6934
ORF3: 6934..7581
LOCUS MT008455 7605 bp RNA linear VRL 15-JUL-2020
DEFINITION Norovirus GI isolate SCD1053 nonstructural polyprotein (ORF1), VP1
(ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MT008455
VERSION MT008455.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7605)
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JOURNAL Unpublished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 7605)
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..7605
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="SCD1053"
/isolation_source="asal swab"
/host="Homo sapiens"
/db_xref="taxon:122928"
/country="China: Shanghai"
/collection_date="18-Feb-2018"
/note="genotype: GI.3[P13]"
gene 1..5316
/gene="ORF1"
CDS 1..5316
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QHR93629.1"
/translation="MAKIRGRIGPQRGETTTKIKDANMALDLLRRSQTPSPCRQTNDS
APKAQRDRPPRTASEVKRALGWDAEPEHQESTARAWCDLSKEEKEEIMRNNERLFDAG
GVTPSTLPSTFERTDSSSVTDEQQPVTWSSNGGVDLGINELTTVRGPFWNMCPLPPLE
ARNSGPAKEPLIGDMVEFYEGHIFHYAIYIGQGKTIGVHSPQAAFSIPRITIHPLVAW
WRVCYIPTSQQRLTYEQLKELENEPWPYASITNNCYEFCCKVMALDDTWLQRRLVTSG
KFNHPTQDWSQDTPDFHQDSKLEMVRDAVLSAINGLVSQPFKNILSKIKPLNVLNLLS
NCDWTFMGVVELVVLLAELFDVFWTPPDISSFIASLLPDFHLQGPEDLARDLVPIILG
GIGLAIGFTRDKITKVMKSAVDGLRSATQLGQYGLEIFSIIKKYFFGGDQTEKTLRGI
EDAVIDMEVLSSTNVTQLVKDKKLAKAYMNVLDNEEEKARKLSVRSADPHIVTSVNNL
ISRISMARSALAKAQAELTSRPRPVVIMMCGPPGIGKTKAAEHLAGRLAAEIRPGGKV
GLVPRESIDHWDGYHGEDVLLWDDYGMSKITEDCNKLQAIADTAPLSLNCDRIENKGM
QFSSDAIIITTNAPGPAPVDFVNLGPVCRRVDFLVYCSAPEIEQTRRAHPGDTNAIKD
LFKKDFSHLKMELAPQGGFDSQGNTPFGKGVMKTTTLNRLLIQATALAMERQDEFQLQ
GAVYNFDEDRVAAFTNLARANGLGLISMATLGKKLRSVKSMEGLRNALLGYKIGECDI
IWNTRVYSVKSDGSNVTIKEKQAPSSPQHQAISTATLALSRLRAARALAYASCLQSAV
LSILQVAGSALVVSRAVKRMFGTRTEQPILEGKHKEHNCRVHRAEAAGHGPIGHDGII
ERYGLCESEQEGEDDQTVELPTADKEGKNKGKTKKGRGRKSNFNAFSRRGLSDEEYEE
YKKVREEKGGNYSIQEYLEDRQRYEEELAEVQAGGDGGIGETEAEIRHRVFYKSKSGL
RKQRQEERRQLGLVSGTEIRKRKPIDWTPPKNDWSEDTRTVNYDEHISFEAPPSIWSR
VVKFGSGWGFWVSSTVFITTTHVIPPGAKEIFGENISNIAIHRVGEFTQFRFSKKMRP
DLSGMVLEEGCPEGTVCTIMIKRDSGELLPLAVRMGAVASMKIQGKLMHGQSGMLLTG
ANAKGMDLGTIPGDCGAPYIHKRGNDWVVCGVHAAATKSGNTVVCAIQGGEGEATLEG
GNQNKGHYAGHPILRYGSGPSLSTKTKFWKSNPQPLPPGTYEPAYLGGKDPRVEGGPS
LQQVLRDQLKPFAEPRGRLPEAGLLEAAVETVTNAIEQVMDTPVAWSYSDACMSLDKT
TSSGYPHHKRKNDDWNGSSFVRELGDQAAHANSMYELGKSMKPVYTAALKDELVKPDK
VYNKIKKRLLWGADLGTVIRAARAFGPFCEAIKPHVIKLPIKVGMNAIEDGPLIYAEH
SKYKYHFDADYTAWDSTQNREIMMESFNIMCKLTANPSLAAVVAQDLLSPSEMDVGDY
VISVKDGLPSGFPCTSQVNSINHWIYTLCALSEVTGLAPDVIQSQSYFSFYGDDEIVS
TDIEFDSNRLTQVLKEYGLKPTRPDKTDGPIIVRQQVDGLVFLRRTISKDAIGYQGRL
DRNSIERQLWWTRGPNHDDPFETLVPHTQRKVQLISLLGEAALHGEKFYRKIASRVIQ
EVKEGGLEIYIPGWQAMFRWMRFHDLSLWTGDRDLLPDYVNDDGV"
mat_peptide 1..1131
/gene="ORF1"
/product="p48"
mat_peptide 1132..2220
/gene="ORF1"
/product="NTPase"
mat_peptide 2221..2820
/gene="ORF1"
/product="p22"
mat_peptide 2821..3240
/gene="ORF1"
/product="VPg"
mat_peptide 3241..3783
/gene="ORF1"
/product="Pro"
mat_peptide 3784..5313
/gene="ORF1"
/product="RdRp"
gene 5300..6934
/gene="ORF2"
CDS 5300..6934
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QHR93630.1"
/translation="MMMASKDAPTNMDGTSGAGQLVPEANTAEPISMEPVAGAATAAA
TAGQVNMIDPWIMNNYVQAPQGEFTISPNNTPGDILFDLQLGPHLNPFLSHLAQMYNG
WVGNMKVKVLLAGNAFTAGKIIISCIPPGFVSQNISIAQATMFPHVIADVRVLEPIEV
PLEDVRNVLFHNNDNTPTMRLVCMLYTPLRASGSSSGTDPFVIAGRVLTCPSPDFSFL
FLVPPNVEQKTKPFSVPDLPLNVLSNSRVPSLIKFMMVSQDHGQMVQFQNGRVTLDGQ
LQGTTPTSASQLCKMRGTVYHASGGQGLNLTEIDGTPYHAFESPAPIGFPDIGDSDWH
INASPATAFGSGESVKRLDMEQGSSFAPHLGTVHYTNASYEANTDLICSLEWLSPPSG
GTPNKVNPWAIPRYGSTLTEAAQLAPPIYPPGFGEAIVFFMSDFPIANGQDGLRVPCT
IPQEFVTHFVNEQAPTRGEAALLHYVDPDTHRNLGEFKLYPEGFMTCVPNSSGSGPQT
LPINGVFTFVSWVSRFYQLKPVGTTGPVRRLGIRRS"
gene 6934..7581
/gene="ORF3"
CDS 6934..7581
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QHR93631.1"
/translation="MAQAIFGAIAATAAGSAVGAGIQAGTEAALQHQRFQQDLTLQSN
TFKHDKEMLGLQVGASTALLQNSLNTRYNMLTNAGLSSSDAARVVVGAPATRVVDWNG
TRVSAPQSTATTLRSGGFMTIPTLYKGKQQQKAPTEIGLSNPNYGSSVSSRVADWVSS
QNSSRSSLGPYHPSALQTTWVTPPGSSSTSTISSVSTAPRYFNTDRLPLFANMRK"
ORIGIN
1 atggcaaaga tccgtgggcg tataggccca caacgtggtg aaacaaccac aaagatcaaa
61 gatgccaaca tggcgctcga ccttttgcgc cggtcacaaa caccatcccc atgtcggcaa
121 actaatgaca gcgcccccaa ggctcaaagg gaccgtcccc cgcggaccgc ttcagaggta
181 aaaagggcgc tggggtggga tgctgaacca gaacaccaag aaagcacagc tagggcatgg
241 tgtgacctct caaaagagga gaaggaagag ataatgcgca acaatgagag gctttttgat
301 gctggaggtg tcactccatc gaccctgccc agcacatttg agagaactga ttcaagcagt
361 gtcactgatg agcaacaacc tgtgacatgg tcttctaatg gaggggttga ccttggtatc
421 aatgaattga ccacagttcg tggcccgttt tggaatatgt gccccctccc accactagaa
481 gcccgcaata gtggccctgc taaggaaccc cttataggtg acatggtcga gttctatgaa
541 ggacacatat tccattatgc catttacatc ggacagggca agactattgg agtccactca
601 ccacaggccg ctttttccat acccagaata accatccacc cactggtggc ttggtggcgt
661 gtgtgttaca tccccactag ccaacaacgc cttacctacg aacagcttaa ggagttggag
721 aatgaaccat ggccctacgc ctcaatcacc aacaactgtt atgagttttg ctgcaaagtg
781 atggcacttg atgatacctg gctccaaaga agactggtta ctagtggaaa atttaaccac
841 cccacacagg actggtcaca ggacacccca gatttccatc aggattcgaa acttgaaatg
901 gtaagggacg ctgtcttatc ggccatcaac ggtcttgtat cacaaccctt taagaacatc
961 ctgtctaaaa ttaaaccatt aaatgtgctt aatcttttat caaactgtga ttggaccttc
1021 atgggcgtcg tggaactggt agtgctcctg gcagaactgt ttgacgtgtt ctggacccca
1081 ccagacattt caagcttcat tgcatcttta ctacctgatt ttcatctaca aggcccagaa
1141 gacctagcca gggacttagt ccccatcata ttaggtggca taggcttagc aattggtttt
1201 acgagagaca aaataacaaa agtgatgaag agtgccgttg atgggctgcg gtcagcaacg
1261 cagctcggac aatatggatt ggagatattc tcaattatca agaaatactt ctttggaggg
1321 gaccaaacag aaaagaccct gcgaggcatt gaagatgcgg tgatagacat ggaagtgttg
1381 tccagtacca atgtgacaca actggtcaaa gataagaagt tagccaaagc ttacatgaat
1441 gtactggaca atgaggagga aaaagcaaga aagctctcag tccgtagtgc tgacccacat
1501 atagtgacct ctgtcaacaa cttgatatca cgcatctcta tggcaagatc agctctggct
1561 aaagcccaag ctgagttgac gtcccgccca cgaccagtgg ttataatgat gtgtggtcct
1621 cctggtattg gaaagactaa ggccgctgag cacctagccg gccgactagc tgctgaaatc
1681 agacctggag gtaaagttgg ccttgtgccc cgggagtcca tagatcattg ggatggatat
1741 catggcgagg acgtcttgct ctgggatgac tatggcatgt caaagataac agaggattgt
1801 aataagttac aggctatagc tgatactgca ccactgtcac ttaattgtga cagaatagaa
1861 aacaaaggca tgcaattctc ttctgatgca ataattataa ccaccaatgc ccctggccca
1921 gccccagtcg actttgtcaa cttaggcccc gtgtgcagac gagtggactt tttagtttac
1981 tgttctgcac ccgagattga acaaacgcgg agggctcatc caggtgacac caatgccatc
2041 aaggatctgt tcaaaaagga cttctcacac ttgaaaatgg aactggctcc acagggcggc
2101 tttgatagtc agggcaacac accttttggg aagggtgtca tgaaaaccac aaccctcaat
2161 aggctattga tacaggccac agcattagcc atggagcgac aagatgaatt ccaactccag
2221 ggggccgtct acaactttga cgaggataga gtggccgctt tcaccaatct agctcgagct
2281 aatggcctgg ggcttataag catggcaaca ttaggcaaga agctgagaag tgttaagtcc
2341 atggaaggct tgcgcaatgc actactggga tacaagattg gagagtgcga tataatctgg
2401 aacaccaggg tgtattcagt taagagtgac gggagcaatg tcacaattaa agaaaagcag
2461 gcaccgtcct caccccaaca tcaagctatt tccacagcta ccctggcgct ctctagactg
2521 cgggctgcta gagcccttgc gtacgcttcc tgtttacaaa gtgcagtgtt gtcaatactt
2581 caggttgccg gctctgcctt agtggtgagt agggctgtaa aacgcatgtt tggcacacgc
2641 accgaacagc ccattctgga gggtaagcat aaagaacaca actgcagagt gcaccgtgca
2701 gaggccgctg gtcatggccc cattggccat gatggaatca ttgaacgtta tggtctgtgt
2761 gagagtgagc aggaaggaga agatgaccaa actgtggagt tgcccactgc tgacaaagaa
2821 ggcaagaaca aaggcaaaac caaaaagggc cgcggacgga aatccaactt caatgcattc
2881 tctaggcgtg gacttagtga tgaggaatac gaggagtaca agaaagtaag agaagagaag
2941 ggtggcaact acagcataca agagtacctt gaggaccgcc aacgctatga agaagaactc
3001 gctgaggtac aagctggtgg agatggtgga atcggcgaaa ctgaagctga gatccgccac
3061 cgtgttttct ataaatcaaa gtctggcttg agaaaacaac ggcaagagga gcgccgccag
3121 ttaggcctcg tgagcggtac tgaaatccgc aaacgcaaac ccatagactg gacccccccc
3181 aaaaatgatt ggtcagagga cactagaact gttaattatg atgaacacat cagctttgaa
3241 gccccccctt caatctggag tagagtagtt aaatttggca gtggctgggg tttttgggtg
3301 agttcaacag tgttcatcac cacaacacat gttataccac ctggtgctaa agagatcttt
3361 ggtgagaaca ttagcaacat tgccatccat agggttggcg aattcaccca attccgtttc
3421 tccaagaaaa tgaggcctga cctatctggc atggtcctgg aagagggatg ccctgagggc
3481 acagtgtgca ccataatgat aaaaagagac tctggagaac tgttgccgct ggctgttcgt
3541 atgggagcag tggcctcaat gaagatccaa gggaagctca tgcatggaca gtcagggatg
3601 ttgctcaccg gtgctaatgc caagggcatg gaccttggta ccatacctgg ggattgtgga
3661 gcgccctata tccataaaag agggaatgac tgggtggttt gtggggtgca tgcagcagcc
3721 acgaaatcag gcaataccgt ggtgtgcgcc atacaaggtg gtgaaggtga agccacgcta
3781 gagggtggca accaaaataa gggtcattat gcaggacacc caatactaag atatggtagt
3841 ggcccttcat tgtcaactaa aacaaagttc tggaaatcaa acccccaacc tctaccccct
3901 ggtacatatg aaccagccta cctcggtggc aaagacccca gggttgaagg tggtccatct
3961 ttgcagcaag tgttgcgaga ccagctaaaa ccatttgctg aacctcgtgg caggttgcct
4021 gaggcaggat tgctagaagc tgcggttgaa actgtcacca atgcaattga acaggtcatg
4081 gacacacctg tggcatggag ttacagcgac gcctgcatgt ccttggacaa aacaaccagt
4141 tctggctacc ctcatcacaa aaggaagaat gatgactgga acgggagttc atttgtgaga
4201 gaattgggag accaggcagc gcatgctaat agcatgtatg agcttggtaa atctatgaaa
4261 ccagtgtaca cagcagcact caaggatgag cttgttaagc cagacaaggt gtacaataaa
4321 attaagaaaa ggctactctg gggggcggac ctcggcaccg ttatacgtgc tgctagggct
4381 tttgggccat tttgtgaagc aataaagccc catgtgatta agttgcctat caaagtgggc
4441 atgaatgcca tagaagatgg acccttaatt tatgcagaac actccaaata taagtatcac
4501 tttgatgctg attacacagc atgggactca acacaaaaca gggagattat gatggagtcc
4561 tttaacatta tgtgtaaact caccgctaat ccctccctgg ccgcagtggt ggcgcaggac
4621 ctgctctctc cttctgagat ggatgtcggt gattatgtga tcagtgtcaa agatggtcta
4681 ccatctggct ttccatgcac ctcacaagtg aacagtatca accattggat ctacactttg
4741 tgtgccttat cagaggttac tggtttggct cctgatgtaa tacagtcaca gtcttacttt
4801 tcattttatg gtgatgatga aatagtttca acagatattg aatttgactc aaacagacta
4861 acacaggtgc taaaagagta tggtttaaaa cccacaagac ctgataaaac tgatggtccg
4921 atcattgtaa ggcaacaggt tgatggcttg gttttccttc ggcgcaccat ctcgaaggat
4981 gccatcgggt accagggtcg gcttgatcgc aattccattg agagacagct ctggtggacc
5041 cgagggccca atcatgatga tccatttgaa accttggtcc cacacacaca gaggaaggtc
5101 caattaatat ccttattagg tgaggccgcg ctccatggtg agaaatttta tagaaagata
5161 gccagtaggg tgatccaaga ggttaaagaa ggaggattgg aaatttacat ccctgggtgg
5221 caggccatgt tccgctggat gcgattccat gatttgagtt tgtggacagg agaccgcgat
5281 ctcctgcccg attatgtaaa tgatgatggc gtctaaggac gccccaacaa acatggatgg
5341 caccagtggt gccggccagc tggtaccaga ggcaaataca gctgagccta tatcaatgga
5401 gccagtggct ggggcagcga cagctgccgc aaccgctggc caagttaaca tgattgaccc
5461 ctggattatg aataattatg tgcaagcccc acaaggtgaa ttcaccatat caccaaacaa
5521 cacaccaggt gatattctat ttgatttaca attaggccct cacctcaacc cctttctatc
5581 ccatttggct caaatgtaca atgggtgggt aggtaacatg aaagtgaaag tcctattggc
5641 aggtaatgct ttcacggcag gaaaaattat tattagttgt ataccccctg gttttgtctc
5701 acagaatata tctatagccc aagctacaat gttcccccac gttatagctg atgtcagggt
5761 cctggagccc attgaggtcc cattggaaga tgtgaggaat gtgttattcc acaacaatga
5821 taacacacca accatgagac tggtatgcat gctctacacc cccttgcgtg ccagcggaag
5881 ctcatctggg acagaccctt ttgtgattgc tgggcgtgtg ttgacctgcc ctagccctga
5941 ttttagcttc ttatttttgg tgccccccaa tgtagaacaa aagactaaac cttttagtgt
6001 tccagatctc ccactcaatg ttctatcaaa ttcaagagtg ccgtcactga taaaattcat
6061 gatggtgtca caggaccatg gacagatggt acaatttcag aatggcaggg tcacactgga
6121 tggacagctc cagggcacca caccaacatc ggccagccag ctctgcaaga tgcgggggac
6181 ggtttaccat gcttccggtg gtcaagggct caatttaact gagattgatg gcactcccta
6241 tcatgcattt gagagcccag ctcccattgg tttccctgac ataggagaca gtgattggca
6301 tatcaacgct tcacccgcca ccgctttcgg cagtggcgaa agcgtcaaaa gactagatat
6361 ggaacagggc tcttcatttg ccccacattt gggtactgta cattatacta atgccagcta
6421 tgaagctaac actgacctga tctgctcatt ggagtggctg tccccgccta gcggaggcac
6481 tccaaacaaa gtcaaccctt gggccattcc acggtatggt tcaactttaa ctgaagctgc
6541 tcagctagcc ccaccaattt acccccctgg ctttggagaa gctatagttt tctttatgtc
6601 agattttcct atagcaaatg gtcaagatgg gttaagagtg ccctgcacta taccccaaga
6661 atttgtaacc cattttgtca atgaacaagc accaacccgt ggggaagctg ccctccttca
6721 ttatgttgac cccgacacac accgcaattt aggtgagttt aagttatacc ctgaaggatt
6781 tatgacttgt gtaccaaatt ctagtggtag tggtccccaa acgctgccta tcaatggagt
6841 cttcactttt gtctcttggg tttcccgttt ctatcaatta aagcctgtgg gaacgaccgg
6901 accggttcgt aggctaggaa tcaggagatc ataatggccc aggcaatatt tggagcaata
6961 gctgcgacgg ctgctggtag cgctgtgggt gcaggcattc aggctggtac tgaggccgca
7021 ctccaacatc agcggttcca gcaggattta acgttgcaga gcaacacttt caaacacgac
7081 aaagaaatgc tagggctaca ggttggtgcc tccactgctc ttttgcaaaa cagcctcaac
7141 acccgctaca acatgctcac aaatgctggc ctctcgtcct cagatgcagc acgcgtggtg
7201 gttggcgcgc cagctacacg tgttgttgac tggaacggca ccagggtgtc agcaccacaa
7261 tctacagcta ccacgttgag gtctggtggg ttcatgacaa tcccaactct gtacaagggc
7321 aaacaacagc agaaagctcc aactgaaatt ggcttgtcta acccaaatta tggttcatct
7381 gtgtcttcta gggttgctga ttgggtttcc tctcaaaatt cttctcgctc atccttgggc
7441 ccgtatcacc ccagtgcttt gcagacaaca tgggtgaccc cacccggttc tagttctact
7501 tctactattt cttctgtgtc tactgcacct agatatttta atactgatag gttgcctcta
7561 ttcgcaaata tgaggaaata atttttgtaa tatgaaatgt gggca
//