Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MT409887 | GII.6 | |
|
|---|---|---|---|
| GII.P7 |
ORF1: 1..5085
ORF2: 5066..6709
ORF3: 6709..7485
LOCUS MT409887 7501 bp RNA linear VRL 01-JUN-2020
DEFINITION Norovirus GII isolate 727-2 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MT409887
VERSION MT409887.1
DBLINK BioProject: PRJNA604000
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7501)
AUTHORS Ruelle,S.B., Hirneisen,K.A. and Silva,A.J.
TITLE Direct Submission
JOURNAL Submitted (29-APR-2020) Microbiology, FDA/ORA/PSFFL, 19701
Fairchild, Irvine, CA 92612, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: CLC Genomics Workbench v. 12
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7501
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="727-2"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="15-Dec-2014"
/note="genotype: GII.P7-GII.6"
gene <1..5085
/gene="ORF1"
CDS <1..5085
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QJF54141.1"
/translation="ASNDATTAFGSQNSVNDSVNTAPSNKEEVGAFSNIKVGFKKMLG
AVPKGTKAPSSDQHCPSVKIGTKTLTVPPEPPNGEDAVQFDAKSETVRGLPDLTTVQN
EHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPPAAI
SLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELND
TWLSRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLG
KLKPLNLLHLLASCDWTFAGIVETVILMAELFGIFWTPPDVSSFIASLIGDFELQGPE
DLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFF
PKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLS
TKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARH
LAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQELADT
CPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEIE
KVKRDFPGQPDMWKDHFKQDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTAR
VAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGTALKSVKT
LEDLKVALRDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDQTSQTANEVGAALLRL
RQARARYYVSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETSESEKEVA
QGRWEIEPKDIEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIE
EYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTGSDI
RKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLIT
TTHVLPKGINELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSI
LVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPY
IYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPGKAP
KLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPP
RPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNGESF
TGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIR
CARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQR
SILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNS
IAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREYGLV
PTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHENP
YESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRW
MRFSDLSTWEGDRNLAPEGVNEDGVE"
mat_peptide <1..993
/gene="ORF1"
/product="p48"
mat_peptide 994..2091
/gene="ORF1"
/product="NTPase"
mat_peptide 2092..2610
/gene="ORF1"
/product="p22"
mat_peptide 2611..3009
/gene="ORF1"
/product="VPg"
mat_peptide 3010..3552
/gene="ORF1"
/product="Pro"
mat_peptide 3553..5082
/gene="ORF1"
/product="RdRp"
gene 5066..6709
/gene="ORF2"
CDS 5066..6709
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QJF54142.1"
/translation="MKMASNDAAPSNDGAANLVPEATNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQESTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEAIVVQPQNGRCTLDGTLQGTTQ
LVPTQICSFRGTLISQTSRSADSTDSAPRARNHPLHVQLKNLDGTPYDPTDEVPAVLG
AIDFKGTVFGVASQRNTTGNSIGATRAHEVHIDTTNPRYTPKLGSVLMHSESTDFDDG
QPTRFTPIGMGADDWHQWELPEYSGHLTLNMNLAPAVAPAFPGERILFFRSVVPSAGG
YGSGHIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRVQ"
gene 6709..7485
/gene="ORF3"
CDS 6709..7485
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QJF54143.1"
/translation="MAGAFLAGLAGDAITSGVGSLINAGANAINQKVEYDFNKQLQLA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLSAGGFSPTDAARGAVNAPMTKILDWNG
TRYFAPNSMKTTSYSGQFSSNPVHRQPTLPRSEPPKIKVNSDSASVYSFASTAPSQST
HSTALTAGSSSSRTTSSSAVASTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSKA
SSYGSVSTVPKAVLDSWTPMFNTHRQPLFAHVRRRGESQI"
ORIGIN
1 gcgtctaacg acgctaccac tgcctttggc agccaaaact ctgtcaatga cagtgtcaac
61 accgcccctt ctaataaaga agaggttggt gcattctcca acatcaaagt tggttttaag
121 aaaatgctgg gtgccgttcc caaggggact aaagcaccca gtagtgatca gcactgcccc
181 tcagttaaga tcgggaccaa gacattaaca gttccccctg agcccccaaa tggtgaagac
241 gccgtgcagt ttgatgcgaa gtcggaaact gtgcgcgggt taccagactt gacaacggtg
301 cagaatgaac acgaaaatac accatacact gtccccccat tgagtgaaag ggagcacaga
361 ccagctactg aaccgcttcc tggcacaata ctggagatgt gggatggtga attctaccat
421 tactctgtgt acgtcagcgg tggcaaagcc ctaggggttc acaagccccc tgcagcgata
481 agcctcgcga cgatagagct cacacccata tctctttatt ggaggcccgt ttacaccccc
541 aactatctgg tctgcccaga cacgttgaag ggccttgctg gtgagaagtt cccctacacg
601 gccttcagca acaactgtta caacttctgt tgctgggtgc ttgagctcaa tgacacgtgg
661 cttagcagga gaagcatctc taggaccacc ggcttcttca aaccatacca gtcttggaat
721 aggaaacccc ttccaaccgt tgatgatgga aagatcaaaa aggtggccaa cgcaattctc
781 tgtgcacttg gatcactgtt ttcaaaacca atcaaggacc tattgggcaa actcaaacca
841 ttgaacttgc tgcacttgct cgcatcatgt gactggacgt ttgcgggcat agtagagaca
901 gtcatactaa tggcggaact tttcggcatc ttttggacac cgccagatgt ttccagcttc
961 atagcctccc tgataggtga ttttgaattg caagggcctg aggatctggc tgtggagctc
1021 gtacccgtgg tcatgggtgg cataggaatg gttctcggct ttaccgctga gaagataggc
1081 cgcatgctat cgtccgctgc atcaacacta cgggcgtgca aagacttggg gaattacgct
1141 cttgacatat tgaaattggt tatgaagtgg ttcttcccaa agaaagaaga gaaagccgag
1201 atggaaaccc taagggcgat tgaggatgct gtcctggaca tggaagctat aggaaataac
1261 catctcacaa ccctcctcaa ggacaaggat agcctcacgg ctttcatgaa gactctagat
1321 ctagaagaag agaaggcgag gaaactgtcc accaaatcat cctcgccaga cattgtcggc
1381 accattaatg ccatactggc tagaatagct gctgccaggt ccctcttgca caaggctaaa
1441 gaagaaatgt tcagcaggat caggcccgtg gttgtcatga tctcgggtag acctggcatt
1501 ggcaaaaccc acatggcaag acacttggct aagagtatcg ccaacaccat gagcggcgac
1561 cagagagtgg ggctcgtccc acgcaacggg gttgatcatt gggacgccta caggggagag
1621 agggtggttt tatgggatga ttatggcatg ggaaaccctg tcaaagatgc cctaacactg
1681 caagagctgg ccgacacctg cccagtaact ctaaactgtg ataggattga gaacaagggg
1741 aagatgtttg acagtgatgt catcataatc acgaccaatt tagtcaaccc agcgcccctc
1801 gattatgtaa acttcgaggc gtgctccaga agggtcgact ttctggtcta tgcagagtca
1861 ccagaaattg agaaggttaa gagagatttc cccggccaac ctgacatgtg gaaggatcat
1921 tttaagcaag acttttccca cataaaactg actctagccc cacagggtgg atttgacaag
1981 aatggcaaca ccccgcatgg taagggcacc atgcgatccc taacccaggg gtccctgact
2041 gcaagggttg caggtctcgt tcacgagagg agagacgagt ttcagctcca ggggaacgac
2101 cttcaaacat ataactttga taccaacaga gtctctgcat ttaggaagct ggccgcagac
2161 aacaagtatg ggatcatgga gactatgaga gtgggcacag cgcttaagag tgtcaagacc
2221 ttggaagatc tgaaagttgc actgagggat gtgaagttca atgagtgtga gataatttac
2281 agaaactcca aataccgagt ctcttccaat ggtaaaggtt ctgtctctgt agacaaagtt
2341 gaggaccaaa catcccagac cgcaaacgaa gtgggtgcag cactccttag actcagacag
2401 gcaagagcca gatactatgt cagctgcttc caagacctcg tttacactct aatacaggtc
2461 gccggagcat cattcgttgt caacaggatc tctaaaagat tctgctggga gagatgggtc
2521 aaaccaaccg agacccagga aacgagtgaa tccgaaaagg aagtggccca aggcagatgg
2581 gagattgagc ccaaggatat agaaccagaa ggtaagaagg gtaagaacaa gaaaggaaga
2641 ggcaagaaac acacagcttt ctccagtaaa ggcctgagtg atgaggagta tgacgagttc
2701 aagagaatca gagaagaaag gaacggaaaa tactccattg aggaatacct gcaagaccgg
2761 gatcgctact atgaggaagt ggcagttgcc cgggcgacag aggaagactt ctgtgaagag
2821 gaggaggcca aaataagaca aagaatcttt cgccccacaa agaaacagag gaaggaagaa
2881 aggggggtgc ttggtttggt tactggctca gacatcagga agagaagacc agacgatttt
2941 caaccgaagg gcaacctgtg ggcagacgac accaggagtg tggactacaa cgagagactt
3001 gatttcgagg ctcccccgag tgtctggtca agaatagtcc cattgggcac tggctggggc
3061 ttctgggtct catcaaacct cctgatcaca acaacgcacg tcctacctaa ggggattaat
3121 gaactctttg gagttgagat caaacagatt cagattcata agtctggaga gttctgcagg
3181 ttcagattcc caagaccaat taggccagat gtcacagggc tcgtgttgga ggaaggcgct
3241 ccagaaggca ctgtctgctc catactcgta aagagaccta caggtgagat gatccccctg
3301 gcagtgagga tgggcacgca tgcatccatg aaaatacagg gtaggaccgt cggtggccag
3361 atggggatgc tcctcacagg ggcaaatgcg aagaacatgg atcttggcac cggtcctggt
3421 gactgcggtt gcccttacat ctacaaacgt ggcaatgata tagttgtcgc gggtgtccac
3481 accgcagcag cccggggagg caacactgtc atatgtgcca ctcaagggca agatggggaa
3541 gcagtccttg agggaaatga gaaccttggc acttactgcg gtgctccaat cttgggtcca
3601 ggcaaggcgc ccaaacttag cacgaagacc aagttctggc gttcatcacc agacgctttg
3661 ccgccaggca cttatgagcc tgcctacttg ggaggtaagg accctagagt ggaaaaagga
3721 ccatccctgc agcaagtcat gagggaccag ctaaaacctt tcacagaacc caggggcaag
3781 ccacctagac ctgcagtcct agaagaagcc aaaaagacag tgatgaatgt tctagagcaa
3841 accattgacc ctgctaaacc gtggacctat tcccaagcat gtgcctcact ggacaagacc
3901 acttccagtg gtagccccca tcatgtcagg aaaaatgacc attggaatgg ggaatccttc
3961 actggccccc tcgcagacca agcatccaaa gccaacctca tgtacgagca ggccaaacat
4021 gtgcagcccg tatatacggc cgcacttaaa gatgaactag tcaaaactga taagatctac
4081 aagaagataa agaaaaggct cttatggggg tcggatcttg gtacaatgat caggtgtgcc
4141 agggcctttg gcggtctcat ggatagcatg aaggcaagct gcatagccct accatgtagg
4201 gtaggaatga acatgaatga agatggcccc atcatatttg acaaacactc taagtatagg
4261 taccattatg atgctgacta ttccaggtgg gactcaaccc agcaaaggag cattctctcg
4321 gccgctatgg aagtgatggt gcggttctct gctgaaccag agctggcaca agtggttgca
4381 gaggacctcc tagcacccag ccaactagat gttggcgatt tcgtcatctc agtccaggag
4441 ggtctgccat caggggtccc atgcacatca caatggaact caatagcaca ctggatccta
4501 accttgagtg caatggcaga agtgtcgggt ctctcaccag atgttgttca agcccactcc
4561 tgtttctcat tctacggtga tgatgagatc gtcagcactg acatcaacct cgatcccatg
4621 aagttgacac agaagctcag agagtatggc ctggtcccca cccgacctga caaaactgag
4681 ggtcccctcg taataactga agatctcacc ggcctaacgt tcctgcgtag gtcaattgca
4741 cgggacccag ctgggtggtt tggaaaattg gaccaagact caatcctcag acagttatac
4801 tggacaaggg gccccaacca tgagaaccca tatgagagca tggtccctca ttcccagcgg
4861 gccacacaac ttatggccct tctcggagag gcttcactgc atggtcccca gttttacaag
4921 aaagtcagca agatggttat taatgagatc aaaagtggtg gtctggaatt ctatgtgccc
4981 agacaagagg ccatgttcag atggatgaga ttctctgacc tcagcacatg ggagggcgat
5041 cgcaatcttg ctcccgaggg tgtgaatgaa gatggcgtcg aatgacgctg ctccatcgaa
5101 tgatggtgct gccaacctcg taccagaggc caccaatgag gttatggcac ttgagccggt
5161 ggtgggagcc tcaattgctg ctcctgtcgt cggccaacaa aatataattg acccctggat
5221 tagagaaaat tttgttcagg caccacaggg tgagtttact gtttcaccaa ggaactcacc
5281 tggtgagatg cttctaaatc ttgaattagg ccctgagctc aacccttatt tgagtcattt
5341 gtcccgcatg tataacggct atgctggtgg tatgcaggtt caggtggtcc tagctgggaa
5401 tgcgttcaca gctggtaaaa tcatctttgc cgccgtccca ccacatttcc ctgttgagaa
5461 cattagtgca gcccaaatca caatgtgccc ccatgtaatt gttgatgtaa gacagcttga
5521 gccagtgctt ttgcccctcc ctgacataag gaacagattc tttcattata atcaggaaag
5581 taccccccgg atgagacttg tggctatgtt gtacacaccc cttagagcaa attctggtga
5641 ggatgtgttt acggtgtctt gcagagtcct gacccgccct gcccccgact ttgaattcac
5701 gttcttggtg ccaccaactg tggagtcaaa gactaagccc tttacactcc ccattctgac
5761 tcttggagag ctgtccaact ccagattccc cgctccgata gatatgttgt acactgaccc
5821 caatgaggca attgtggtgc aaccacaaaa tggcaggtgc actctagatg gaacacttca
5881 agggaccacc caactggtac ccacccaaat ttgctccttc aggggcacgc taattagcca
5941 gacgtcgagg tctgcagatt caacagattc agccccacga gcgaggaacc accctctcca
6001 cgtccagctg aagaacctcg atgggacacc atatgaccca acagatgagg tgccagcagt
6061 tttgggtgcc atagatttca aaggaactgt gtttggggtc gctagtcaaa gaaacaccac
6121 agggaactct ataggagcaa cccgcgccca tgaagtgcac atagatacca caaaccctag
6181 atacacccca aagcttggct ctgtgttgat gcattctgaa tctactgatt ttgatgatgg
6241 gcaacccacc cgctttaccc ccattggtat gggagccgat gattggcacc aatgggaatt
6301 gcccgaatat tctggtcacc tcactcttaa catgaatttg gcccccgcag ttgcccctgc
6361 tttccctggt gagcgcattc tcttcttcag atcagtggtg ccgtctgctg gtggctatgg
6421 atcaggtcac atagattgcc tcatcccaca ggagtgggtt cagcatttct accaggaggc
6481 cgctccatca caatccgcgg tggctcttat cagatatgtc aaccctgaca ctggaagaaa
6541 catctttgag gcaaaactgc atagagaagg gttcattact gtggcaaatt ctggaaacaa
6601 ccccatagtt gtgcccccaa atggttactt caggtttgag gcctgggtca atcaattcta
6661 cacactcacc cccatgggaa ctggacaggg gcgcagaaga gttcaataat ggcaggagct
6721 ttcttagctg gattggcagg tgacgccata acaagtggtg tcgggtccct aatcaatgct
6781 ggggccaatg caattaacca aaaggtagaa tatgacttta ataaacagct ccaattggca
6841 tcctttaaac atgacaaaga gatgttgcaa tcacaagtac tggccactaa acagctccag
6901 caggagatga tgaacataag gcaaggggtc ttgtccgctg gcggcttttc ccctacagat
6961 gccgcgagag gtgctgtgaa cgcgccgatg acaaaaattt tggattggaa tggaacaagg
7021 tactttgccc caaatagtat gaagacaacc agttattcgg gccagttttc cagcaaccct
7081 gtgcataggc aacccacttt accccgttct gaacccccaa aaattaaggt taatagtgat
7141 tctgctagtg tgtatagttt tgcatctact gctccttcac aatcaactca ttcaacggct
7201 ttgactgcgg ggtctagctc atctaggaca acatcctctt ctgcagtagc ttccacccta
7261 tctaggacta gtgactgggt gagaggacaa aatgagaggc ttagcccgtt tatggatggt
7321 gctctccaaa caacttttgt cacaccgcca tcgagcaaag cttcatcata tgggtcggtc
7381 tcaaccgttc ccaaagctgt tttggactcc tggactccta tgttcaatac ccataggcag
7441 cctctcttcg ctcatgtgcg caggcgaggg gagtcacaga tttagtgaaa agattgatta
7501 g
//