Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MT357897 | GI.7 | |
|
|---|---|---|---|
| GI.P7 |
ORF1: 1..5388
ORF2: 5372..6991
ORF3: 6991..7638
LOCUS MT357897 7658 bp RNA linear VRL 25-APR-2020
DEFINITION Norovirus GI isolate Hu/US/2017/GI.7[P7]/Pennsylvania1021
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION MT357897
VERSION MT357897.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7658)
AUTHORS Chhabra,P., Husband,B., Montmayeur,A.M., Tatusov,R.L., Barclay,L.
and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (17-APR-2020) Division of Viral Diseases, Centers for
Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA
30329, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. 11.1.2; SPAdes v. 3.6
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7658
/organism="Norovirus GI"
/mol_type="genomic RNA"
/strain="Pennsylvania1021"
/isolate="Hu/US/2017/GI.7[P7]/Pennsylvania1021"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122928"
/geo_loc_name="USA"
/collection_date="17-Jun-2017"
/note="genotype: GI.7[P7]"
gene <1..5388
/gene="ORF1"
CDS <1..5388
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QJC14573.1"
/translation="ASNDAIAAADVSKQNANTNNENIGSRLMARLKERISSQRGEGTT
KIKSTEMALDLIRRSQTPSPTRSDPPPKAQRDRPPRTVSEVKQVLGWDGPTGKDYGAR
AWCDLTAEEKKEILDNNERLFDAGGVTPSTVPSTFERCETPERADGCHPVKWSESAGV
DLGVDSLTTVTGPVWNMCPLPPIDSRNNGPASEPRIGDMIEFYEGHIFHYAIYLGQGK
TIGVHSPQAAFSIARITIHPMAAWWRVCYEPTDQQRLSYDQLKELENEPWPYASITNN
CYEFCCRVMSLDDTWLQRKLVTSGRFNHPTQEWSKETPDFHQDSKLEIVRDAILSAIN
GLVSQPFKNILSKIKPLNLLSLLSNCDWTFMGVVELVVLLAELFDIFWTPPDISNFIA
SLLPDFHLQGPEDLARDLVPLILGGIGLAIGFTRDKITKVMKSAVDGLRSATQLGQYG
LEVFSIIKKYFFGGDQTEKTLKGIENAVIDMEVLSSTNVTQLVRDKKLAKTYMNILDN
EEEKARKLSVRSADPHVVTTVNNLISRISMARSALAKAQAEMTNRARPVVIMMCGPPG
IGKTKAAEHLANRLAGEIRPGGKVGLVPRESIDHWDGYHGEEVLLWDDYGMSKITEDC
NKLQAIADTAPLTLNCDRIENKGMQFVSDAIIITTNAPGPAPVDFVNLGPVCRRVDFL
VYCTAPEIEQTRRAHPGDTNAIKNLFKTDFSHLKMEIAPQGGFDNQGNTPFGRGAMKS
TTLNRLLIQAVALTMERQDEFQMQGAVYNFDEDRVTAFTSLARANGLGLLSMAALGKK
LRSVNNMEGLRNALKGYKITECDIVWNNRTYTIKGDGSNVSVIEKQVTATLQQQAISS
VTLALSRLRAARALAYASCLQSAVTTILQMAGSAVVISRAVKRMFGTHTNQPALEGKP
REHNCRVHRAEREGRGPIGHDGIIERYGLCETDQEEEEKIEMEVPTADKEGKNKGKNK
KGRGRKNNYNAFSRRGLSDEEYEEYKKVREEKGGNYSIQEYLEDRQRYEEELAEVQAG
GDGGIGETEAEIRHRVFYKSKSGMRKQRQEERRQLGLVTGTEIRKRKPIDWTPPKNDW
SEDTRQVNYDEHISFEAPPSIWSRVVKFGSGWGFWVSSTVFITTTHVVPPSAKEIFGE
KLSDIAIHRVGEFTQFRFSKKMRPDLSGMVLEEGCPEGTVCTIMVKRDSGELLPLAVR
MGAVASMKIQGKLMHGQSGMLLTGANAKGMDLGTIPGDCGAPYVHKRGNDWVVCGVHA
AATKSGNTVVCAIQSGEGEATLEGGGQNKGHYAGHPILRYGNGPSLSTKTKFWKSTPQ
PLPPGTYEPAYLGGRDPRVDGGPSLQQVLRDQLKPFAEPRGRLPEPSLLEAAVETVTN
VLEQTMDTPVPWSYSDACMSLDKTTSSGFPHHKRKNDDWNGSAFVRELGEQAAHANNM
YELGKSVKPVYTAALKDELVKPEKVYTKIKKRLLWGADLGTVIRAARAFGPFCEAIKP
HVIKLPIKVGMNAIEDGPLIYAEHAKYKYHFDADYTAWDSTQNREIMLESFNIMCKLT
ANPSLAAVVAQDLLSPSEMDVGDYVISVKDGLPSGFPCTSQVNSINHWIYTLCALSEV
TGLAPDVLQAQSYFSFYGDDEIVSTDVEFDPIKLTQVLKEYGLKPTRPDKSEGPIIVK
QQIDGLVFLRRTISKDAVGYQGRLDRNSIERQLWWTRGPNHDDPFETLIPHQQRKIQL
ISLLGEAALHGEKFYRKIANRVIQEVKEGGLELYIPGWQAMFRWMRFHDLSMWTGDRN
LLPDYVNDDGV"
mat_peptide <1..1203
/gene="ORF1"
/product="p48"
mat_peptide 1204..2292
/gene="ORF1"
/product="NTPase"
mat_peptide 2293..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="QJC14574.1"
/translation="MMMASKDAPSNMDGTSGAGQLVPEVNAAEPLPLEPVVGAATAAA
TAGQVNLIDPWIMNNFVQAPEGEFTISPNNTPGDILFDLHLGPHLNPFLQHLSQMYNG
WVGNMRVRVMLAGNAFTAGKIIICCVPPGFASQNISIGQATMFPHVIADVRVLEPIEI
PLDDVRNVLYHTNENPPTMRLLCMLYTPLRAGGASSGTDPFVIAGRVLTCPAPDFNFL
FLVPPSVEQKTRQLTVPNIPLNNMANSRVPAMINKMTVSADQNQVVQFQNGRCTLEGQ
LLGTTPVSASQVARIRGKVFSTASGKGLNLTELDGTPYHAFESPAPLGFPDIGACDWH
VSTFKVDQNLSGDPMSRLDIKQNAPFAPHLGSIEFTSDQDPTGDQLGTLAWVSPSTSG
TRVDPWKIPSYGSTVTESTHLAPPIFPPGFGEAIVYFMSDFPIVSGTTAQVPCTLPQE
FVSHFVEQQAPIRGEAALLHYVDPDTHRNLGEFKLYPDGFVTCVPNTGGGPQNLPTNG
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="QJC14575.1"
/translation="MAQAIIGAIAATAAGSAVGAGIQAGTEAALQYQRFQQDLTLQEN
SFKHDERMLGLQIEGSNALLQKNLSTRYNLLVGAGLSSADAARSIVGAPVTKIVDWNG
VRIAAPTSTATTLRSGNFMNIPVTLKKEPQNLPPRSTGFSNPNYDSSTMISRTTQWVE
SQNSIRNLSPFHTSALRTTWVTPPGSTSTSTFSTVSSAPRFFNTERLPLFANNRK"
ORIGIN
1 gcgtctaacg acgctattgc cgctgctgat gtcagcaaac aaaatgctaa caccaacaac
61 gaaaacatcg gttctcgcct tatggcgaga ctgaaagagc gtataagctc tcaacgtggt
121 gagggaacca cgaaaatcaa gagtactgaa atggcactgg acctaatacg caggtcccaa
181 acaccatcgc caacgcgctc ggacccccct cctaaggcgc agcgcgatcg ccctccgagg
241 actgtgtcag aagtcaagca ggttttagga tgggatggcc ctactggtaa ggattatggg
301 gcccgagcat ggtgcgactt aacagctgaa gaaaagaagg aaatcctgga caacaacgag
361 cgccttttcg acgctggtgg tgtgactcct tcaacagtgc caagcacctt tgagagatgt
421 gaaacacctg agcgagctga cggctgccat cctgtcaaat ggagcgagtc tgcgggagtg
481 gatttaggcg tggattccct gaccactgtc acaggcccag tgtggaacat gtgccccctt
541 ccaccgattg attcacgtaa caatggccct gctagtgagc cacgcattgg agatatgata
601 gaattttatg aagggcacat atttcattat gccatatatc ttggtcaggg gaagaccata
661 ggagtccact cccctcaggc agccttctcc atagctcgta taaccataca ccctatggca
721 gcatggtggc gtgtctgcta tgagccaaca gaccagcaac gcctcagcta tgaccaatta
781 aaagaacttg agaatgaacc gtggccctat gcatccataa cgaacaactg ttatgaattc
841 tgctgccgtg tcatgtccct ggacgacacc tggttacaac gaaagttggt aacatccggt
901 aggtttaatc accccaccca ggagtggtcc aaggaaacac ctgatttcca tcaagattca
961 aaattggaaa tagtgagaga cgcaatacta tccgccataa acggcttggt ttctcaacct
1021 ttcaagaata tcctctcaaa aattaagcca ttgaatttgt tgtctttgct atcaaattgt
1081 gactggactt tcatgggggt tgtcgagcta gtggtgctat tggctgagtt gttcgacatc
1141 ttctggaccc cacctgatat ctccaacttc atagcatctc ttctacctga ctttcacctg
1201 caagggccag aggatttggc aagagacctg gtcccattga tattgggggg tatcggcctg
1261 gctattggct ttactagaga caaaattaca aaagtcatga agagtgccgt tgatggcctg
1321 cgctcagcca cgcagcttgg acaatatggc cttgaggtgt tttcgatcat aaagaaatat
1381 ttctttggtg gagaccaaac tgagaaaacc ctcaagggca tagagaatgc agtcatagac
1441 atggaggtcc tgtcgagtac caatgtcaca caactggtgc gcgacaagaa attggccaaa
1501 acatacatga atatcctgga caatgaggag gaaaaggcaa ggaaactttc agtgcgcagt
1561 gcagacccac atgttgtaac aacagtcaac aacctcattt cgcgcatatc tatggcgcga
1621 tcagcacttg ccaaggctca agctgagatg actaaccggg cacgccccgt ggtcataatg
1681 atgtgcgggc caccaggtat aggaaagacc aaagctgctg aacacctggc caatcgccta
1741 gctggtgaga taagacctgg gggaaaagtg ggcttagtgc ctagagaatc cattgaccat
1801 tgggatggtt accatgggga agaagtcctg ttgtgggatg actatggtat gtccaagata
1861 acagaggact gcaataaatt acaagctata gctgacactg ccccactcac actcaactgt
1921 gacaggatag agaataaggg catgcaattt gtgtcagatg caataataat aacaacgaat
1981 gcccctgggc cagctcccgt cgactttgtt aaccttggtc cagtttgtcg acgtgtagac
2041 tttttggtgt attgcaccgc ccccgaaatt gaacagacca ggagggccca ccctggggac
2101 accaatgcta tcaagaattt gtttaaaaca gacttttccc atttaaaaat ggagatagca
2161 ccacaagggg ggtttgataa tcaaggaaac accccttttg ggaggggtgc tatgaaatca
2221 accacactca ataggctact catacaggca gtcgccttga cgatggaaag acaagacgag
2281 ttccaaatgc agggggcagt gtacaacttt gatgaggatc gggttacagc tttcactagc
2341 ctggcccgag ccaacggact ggggcttttg agcatggctg cactcggtaa aaagttgcgg
2401 agcgttaaca acatggaggg acttcgcaac gccctcaaag ggtacaagat cactgagtgt
2461 gacattgtgt ggaacaacag gacttacacc attaaaggag atggatcaaa tgtgagtgtc
2521 atagaaaagc aggtaactgc cactcttcag cagcaagcca tcagctcagt tactctggca
2581 ctttctaggt tgcgcgccgc acgagcgctg gcgtatgcat catgtctcca gagcgcagtg
2641 accaccatct tgcaaatggc tgggtctgca gtggtgatca gcagggcggt caaacgcatg
2701 tttgggaccc acaccaacca gccagcactg gaaggcaagc ccagagaaca caactgcagg
2761 gtccaccggg ctgaaaggga aggtcgtggc cccattggtc atgatggcat catagaacgg
2821 tacggtctgt gtgagactga tcaagaagaa gaagaaaaga tcgagatgga agtgccgact
2881 gcagacaagg aaggtaagaa caaaggcaag aacaagaagg ggcgaggtag gaagaataac
2941 tataacgcct tctctaggcg aggcctaagt gatgaggagt atgaagaata caagaaggtt
3001 agagaagaga agggtggtaa ctacagcatc caagaatacc tcgaggaccg tcaacgatat
3061 gaagaagagt tggctgaggt ccaagcgggt ggagatggcg ggatcggtga aacagaggca
3121 gagatccgcc atcgtgtttt ctacaaatcc aagagtggca tgcgaaagca acgtcaagaa
3181 gaacgccgac agcttggatt ggttacaggc actgaaatca gaaaacgcaa gcccatagat
3241 tggacaccac ccaagaatga ttggtcagaa gacaccagac aggttaacta tgatgagcac
3301 atcagctttg aagccccacc ttctatttgg agtagggtgg tcaaatttgg cagtggatgg
3361 ggtttttggg tgagttcaac agtttttatc acaaccacac acgttgtacc accaagtgct
3421 aaagaaattt ttggggaaaa actttcagat atagcaatac acagagttgg ggagttcaca
3481 caatttagat tctctaagaa aatgagacct gacctcagtg gtatggtcct tgaagaaggt
3541 tgcccggagg gaacggtgtg caccataatg gtgaagagag attcaggtga attgttacct
3601 ctagctgtgc gcatgggagc tgtcgcgtcc atgaagatac aaggtaagct catgcatggg
3661 cagtctggta tgttgctaac cggtgcaaat gcaaagggaa tggacctggg caccatccct
3721 ggtgactgtg gagctccata cgtgcataaa aggggaaatg actgggtggt gtgtggagtg
3781 catgctgccg caaccaagtc aggcaacacc gtagtgtgtg caatacaatc aggtgaaggt
3841 gaagctaccc ttgaaggggg tgggcaaaac aaagggcatt atgcaggcca tccaatttta
3901 aggtatggca atgggccctc cctctccaca aaaaccaaat tctggaaatc aaccccccaa
3961 ccactcccgc ctggaaccta tgaaccagct tacctaggtg ggcgtgaccc tagggtagat
4021 ggaggtccat cccttcaaca agtcctacgt gaccaactca agccatttgc tgagccccgt
4081 ggtagactgc cagaaccgag cttgctcgaa gcagctgtgg agactgtcac aaatgtttta
4141 gaacaaacaa tggacacacc tgtgccatgg agctacagtg atgcctgtat gtcacttgat
4201 aagaccacca gctcgggctt tccacaccac aaacgcaaga atgacgattg gaacggaagt
4261 gcgtttgtgc gtgagcttgg agaacaggcg gcccatgcca acaacatgta tgagttgggt
4321 aaatcagtca agccggttta caccgcagca ctcaaggatg aactggtgaa acccgagaaa
4381 gtgtacacaa aaataaagaa gagactgctt tggggcgcag accttggcac agtcattcga
4441 gccgcccgag cctttggtcc attctgtgaa gccataaaac cacatgtgat aaaactgcca
4501 attaaagttg gcatgaatgc aattgaggac ggccccctca tatatgctga acatgcaaag
4561 tataaatatc actttgatgc agactacaca gcttgggatt caacccaaaa tagagaaatc
4621 atgttagaat ccttcaacat catgtgcaaa ctcacggcta atccgtcact ggctgccgtc
4681 gtggctcagg acctgttatc cccatcagaa atggacgtgg gtgattacgt gatcagtgtc
4741 aaggatggcc ttccctcagg gttcccatgc acctcacagg tcaatagcat aaaccactgg
4801 atatacactc tgtgtgctct gtcggaagtc acaggcctag cccctgacgt tctgcaggcc
4861 caatcctact tctccttcta cggagatgat gaaattgtct caactgatgt ggaatttgac
4921 ccaataaagc tcacccaagt gcttaaggaa tatggcttga agcccacccg gcctgacaaa
4981 tcggagggac ccatcatagt gaaacaacag atagatgggc tagttttcct gaggcgcact
5041 atatcaaaag atgctgtcgg ttaccaagga cgcctggacc gtaactccat tgaaagacaa
5101 ttatggtgga ctcggggccc gaaccatgat gatccctttg agacattgat accccatcaa
5161 caaagaaaga tccaactaat ttccctgctt ggtgaagccg cacttcatgg agaaaaattc
5221 tataggaaga ttgccaacag agttatacag gaagtcaagg agggggggct tgagctctat
5281 ataccgggtt ggcaggccat gttccgctgg atgcgattcc atgacttgag tatgtggaca
5341 ggagatcgca atctcttgcc cgattatgta aatgatgatg gcgtctaagg acgccccctc
5401 aaacatggat ggcactagtg gtgccggtca gctggtccca gaggttaatg cagctgaacc
5461 tttacccctt gaaccggtag tgggcgccgc aactgcggct gccactgctg gacaagttaa
5521 tttaatagac ccctggatta tgaataattt tgttcaagcc cctgagggtg agtttaccat
5581 ctcacctaat aacacccctg gagatattct gtttgatctg catctaggac cacaccttaa
5641 tccctttttg cagcatttat cccaaatgta caatggttgg gtgggcaata tgagagttag
5701 agttatgctt gcagggaatg cgttcactgc cggtaagatc ataatttgtt gtgtcccacc
5761 tggctttgca tcccaaaata tatcaattgg ccaggccact atgttcccac atgtcatagc
5821 tgatgtgaga gtgctggagc ctatagaaat ccctcttgat gatgtgcgca atgtcttgta
5881 ccacaccaat gagaaccctc ccaccatgcg gttgctttgc atgctataca caccccttcg
5941 tgctggtggt gcttcatcgg gcacggaccc ctttgtcatt gcgggtcgtg tattaacttg
6001 ccctgcccct gattttaatt tcctgttcct tgtaccccct agtgtagagc agaaaaccag
6061 gcagttgact gtgcccaaca tacccctgaa caatatggcc aattccagag tgcccgcaat
6121 gataaacaag atgacagttt ctgctgatca gaaccaggtg gtccaattcc agaatggtcg
6181 ttgcacactt gaaggacagc tcttgggcac aactccagtt tcagctagcc aagtggcccg
6241 catacgtggc aaagtctttt ccaccgcatc tgggaaagga ctcaatctga ctgagttgga
6301 tggaacccct taccacgcat ttgagagccc agcccccctt ggtttccctg acatcggagc
6361 ctgtgattgg catgtgtcaa cctttaaagt ggatcagaac ctttcaggag accctatgtc
6421 caggttagat ataaaacaaa atgccccgtt tgcaccacac cttggttcca ttgaattcac
6481 atctgatcag gacccaactg gggatcaatt gggaacattg gcctgggttt ccccttccac
6541 tagtggaact agggtagacc cctggaaaat tccatcatat ggttcaacag tgacagaatc
6601 cactcatctg gcaccaccca tatttccacc aggctttggc gaggccatag tttattttat
6661 gtcagatttt cccattgtct caggcaccac tgcccaagtc ccctgcactc tgccccagga
6721 atttgtctca cactttgtgg agcaacaggc accgattcga ggagaagctg ccctgcttca
6781 ttatgtggac ccagacactc accgtaatct aggagagttc aaattgtacc ctgatggatt
6841 tgtcacctgt gtgccaaaca caggtggtgg tcctcaaaat ttacctacaa atggagtctt
6901 tgtcttttct tcctgggttt ctaggtatta ccaattaaag cctgtgggaa cagccggtcc
6961 ggctaggagg cttggtgtca gaagggtata atggcccaag ccattatagg agctattgcc
7021 gccaccgctg ctggcagcgc cgtgggggca ggtatccagg ctgggacaga agcagccctt
7081 caataccaga ggtttcaaca agatcttaca ctacaagaga actcatttaa acatgatgaa
7141 agaatgctag gtttgcagat tgagggatct aacgctttac tacaaaagaa cctttctact
7201 cgctataatc ttttggttgg tgcaggtctt tcttcagctg acgctgcaag atccatcgtt
7261 ggggcccctg tgacaaaaat tgtggactgg aacggagtga ggattgctgc ccctacgtcc
7321 actgccacta cactccgatc tggcaatttt atgaatatac cagtcacact caaaaaggag
7381 cctcaaaact tgccgccacg ctctacgggc ttttctaatc ctaattatga ttcatctaca
7441 atgatttcta ggacaactca gtgggtagag tcacaaaatt caatcaggaa tttatcgcct
7501 ttccatacct cagccctgag gaccacctgg gtgacccctc ctggttctac ttctacttct
7561 actttttcta ctgtttcttc tgcgccacgg ttctttaaca ccgagcgcct ccctctgttc
7621 gcaaacaata ggaaatagtt tttgtaatat aatgtggg
//