Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| OR536461 | GII.14 | |
|
|---|---|---|---|
| GII.P7 |
ORF1: 4..5097
ORF2: 5078..6688
ORF3: 6688..7482
LOCUS OR536461 7515 bp RNA linear VRL 04-MAR-2024
DEFINITION Norovirus GII isolate Hu/NL/2021/GII.14/Rotterdam/I129S29_P18-d1693
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION OR536461
VERSION OR536461.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7515)
AUTHORS Izquierdo Lara,R.W., Villabruna,N., Hesselink,D.A.,
Schapendonk,C.M.E., Ribo Pons,S., Meier,J.I.J., Goodfellow,I.,
Dalm,V.A.S.H., Fraaij,P.L.A., van Kampen,J.A., Koopmans,M.P.G. and
de Graaf,M.
TITLE Intra-host multi-lineage evolution of human Norovirus in
immunocompromised individuals: Implications for treatment
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7515)
AUTHORS Izquierdo Lara,R.W., Villabruna,N., Hesselink,D.A.,
Schapendonk,C.M.E., Ribo Pons,S., Meier,J.I.J., Goodfellow,I.,
Dalm,V.A.S.H., Fraaij,P.L.A., van Kampen,J.A., Koopmans,M.P.G. and
de Graaf,M.
TITLE Direct Submission
JOURNAL Submitted (11-SEP-2023) Viroscience, Erasmus Medical Center, Dr.
Molewaterplein 40, Rotterdam, Zuid-Holland 3015 GD, Netherlands
COMMENT ##Assembly-Data-START##
Assembly Method :: Spades v. 3.15.4; BWA-MEM v. 0.7.17
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7515
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/NL/2021/GII.14/Rotterdam/I129S29_P18-d1693"
/isolation_source="feaces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Netherlands: Rotterdam"
/collection_date="27-Jul-2021"
/note="genotype: GII.14"
gene 4..5097
/gene="ORF1"
CDS 4..5097
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WMX17761.1"
/translation="MKMASNDATTAFGSQNSVNDSTNAAPSNKEEVGAFSNFKVGFKK
MLGAVPKSTKAPSNDQQCPTVKIGPRTLVVPPEPPNGEDIVQFDAKSETVSGLPDLTT
VQNEHENTPYTVPPLSEREHRPAAEPLPGTILEMWDGEFYHYSIYVGGGKTLGVHKPP
AAISLATIELTPISLYWRPVYTPNYLICPDTLKGLAGERFPYTAFSNNCYNFCCWVLE
LNDTWLSRKSISRTTGFFKPYQTWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLAAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHRAKEEMFSRIRPVVVMISGRPGIGKTHM
ARHLAKSIASTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMASPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLANPAPLDYVNFEACSRRVDFLVYAESP
EIEKVKRDFPGQPDMWKDHFKPDHSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERRDEFQLQGNDLQVYNFDTNKVSAFRKLAADNKYGIMETMKVGAALKN
VKTLEDLKAALRDVKFNECEIIYRSSKYRVSSNGKGSVSVDKVEDHASQTANEVCSAL
LRLRQARARYYISCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETFEPEK
ETAQSRWEIEPKDAEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRVFRPTRKQRKEERGVLGLVTG
SDIRKRKPDDFQPKGNLWADDTRGVDYNERIDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPRGLKELFGVEVKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIIVAGVHTAAARGGNTVICATQGQDGEAVLEGNESLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
KPPRPAILEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDYWNG
ESFTGPLADQASKANLMYEQAKHVQPMYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRFHYDADYSRWDST
QQRSILTAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVVSVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINIDPAKLTQKLREY
GLVPTRPDKTEGPLVITENLAGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
mat_peptide 4..1005
/gene="ORF1"
/product="p48"
mat_peptide 1006..2103
/gene="ORF1"
/product="NTPase"
mat_peptide 2104..2622
/gene="ORF1"
/product="p22"
mat_peptide 2623..3021
/gene="ORF1"
/product="VPg"
mat_peptide 3022..3564
/gene="ORF1"
/product="Pro"
mat_peptide 3565..5094
/gene="ORF1"
/product="RdRp"
gene 5078..6688
/gene="ORF2"
CDS 5078..6688
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WMX17762.1"
/translation="MKMASNDATPSDDGAAGLVPEINNEVMALEPVAGASIAAPVVGQ
QNVIDPWIRNNFVQAPAGEFTVSPRNSPGELLLDLELGPELNPYLSHLSRMYNGHAGG
MEVQIVLAGNAFTAGKILFAAIPPSFPYENLSPAQLTMCPHVIVDVRQLEPVLLPMPD
IRNVFYHYNQNNSPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFQFTFLVPP
TVESKTKNFTLPVLRVSEMTNSRFPAVLDQMYTSRSENIIVQPQNGRCTLDGELLGTT
TLQSVSICNFRGTMQAKLNGQPRYQLQITNLDGSPIDPTDDMPAPLGTPDFQAMLYGV
ASQRSPADNATRAHEAQIDTAGDTFAPKIGQVRFESGSDDFDLHDPTKFTPIGIKVDD
QHPFRQWSLPNYGGHLALNNHLAPAVTPLFPGEQILFFRSHIPSAGGFADGAMDCLLP
QEWIEHFYQEAAPAQSDIALVRFINPDTGRVLLEAKLHKQGFLTVAASGDHPIVMPAN
GYFRFEAWVNPFYTLAPVGTGSGRRRIQ"
gene 6688..7482
/gene="ORF3"
CDS 6688..7482
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WMX17763.1"
/translation="MAGAFLAGLAGDVAASSLSSLVGAGANAINQKVEYDFNRQLQEA
SFKHDKDMLRAQVAATTGLQQAMIDIKREALTAGGFSPADAARGSVKAPMTTLLDWNG
SRHWAPNSMRTTGYSGTFTSQGIRSSPHLSNQTPSAVKPTKTLPSISSSSSVYSSPST
APSQSTQSTTLSAGTGSSRPNTVSTKTSTLSRTSDWVRDQNQMIGPFMNGALQTAYVT
PPSSRASSQGTVSTVPKAVLDSWTPMFNTHRQPLFAHMRRRGESQT"
ORIGIN
1 tgaatgaaga tggcgtctaa cgacgctacc actgcctttg gcagccaaaa ctctgtcaat
61 gacagtacta acgccgcccc ttccaataaa gaagaggttg gtgcattctc caactttaaa
121 gttggattta agaaaatgct gggtgccgtg cccaagagca ccaaagcgcc cagcaatgac
181 caacaatgcc ccacagtcaa gattggaccc agaacattag tggtcccgcc tgaaccacca
241 aatggagaag atatcgtgca gtttgatgca aagtcagaaa ctgtgagtgg gctaccagac
301 ctgacaacgg tgcaaaatga acatgaaaac accccatata cggtccctcc actgagtgag
361 agggaacaca gaccagccgc tgagccactc cctggcacaa tattagagat gtgggacggt
421 gagttctacc actactccat ctatgtcggt ggtggtaaga ccctgggggt ccacaaaccc
481 cctgcggcta taagccttgc aacaatcgag ctaaccccca tatctctgta ctggcggcct
541 gtctacaccc ctaattactt gatttgtcca gacacattga agggtcttgc tggtgagaga
601 ttcccctaca cggctttcag taacaactgt tacaacttct gctgctgggt gctggagctc
661 aatgacacgt ggcttagcag aaagtccata tctagaacca ctggcttctt taaaccgtac
721 cagacttgga acagaaagcc tctcccaact gtcgatgatg gaaagattaa gaaggtggcc
781 aatgcaattc tctgtgcgct tggttcgctg ttttcaaaac caatcaaaga cttattaggc
841 aagctcaaac cactgaatct gctgcacttg ctcgcttcgt gtgattggac gtttgcgggt
901 atagtggaga cggtcatctt aatggcggag ctctttaacg tcttttggac cccgcctgac
961 gtctccaatt tcatagcctc cctgataggt gactttgagt tacaagggcc tgaggatttg
1021 gctgtggaac tagtccctgt ggttatgggt ggcataggca tggttcttgg cttcacggct
1081 gagaagatag gccgcatgtt gtcatctgct gcatcaactc tccgggcgtg caaagatctg
1141 ggaaactacg cccttgacat acttaaactg gtcatgaaat ggttcttccc caagaaagag
1201 gaaaaagctg agatggaaac cttaagagcg attgaggatg ctgtcttgga catggaggct
1261 ataggaaaca atcacctcac aactcttctt aaagataagg atagcctcgc agccttcatg
1321 aagaccctgg atctagaaga ggaaaaagcg aggaagctgt cgaccaaatc atcgtcacct
1381 gacatcgtcg gcaccatcaa cgccatactg gctagaatcg ccgctgccag gtccctccta
1441 cacagggcca aagaggagat gttcagcaga atcagaccag tggttgttat gatctcaggc
1501 aggcctggca ttggcaagac ccacatggca agacacctgg ccaagagcat cgctagcacc
1561 atgagcggtg accagagagt cggactcgtt ccgcggaacg gagtggacca ctgggacgca
1621 tacagagggg agagagtggt cttgtgggac gactatggca tggccagtcc tgtcaaagat
1681 gctttaaccc tgcaagaatt ggccgacact tgcccagtca ccttaaattg tgacaggatt
1741 gaaaacaaag gaaaaatgtt tgacagtgat gtcatcataa tcacaaccaa cttggccaac
1801 cccgcacccc tcgactatgt gaactttgag gcgtgttcca gaagagttga tttcctggtc
1861 tatgcagaat caccagaaat tgaaaaggtc aagagggatt tccctggaca acctgacatg
1921 tggaaagacc acttcaagcc agaccactcc catataaaac tgaccctagc cccccagggt
1981 gggtttgata aaaatggtaa cactccgcat ggcaagggca ccatgcgatc tctaacccaa
2041 ggttctttaa ctgcaagggt tgcaggatta gtccatgaga ggagagatga gttccagctc
2101 caaggaaatg acctccaagt atacaatttt gacaccaaca aggtctctgc gtttaggaaa
2161 ctggctgcag acaacaagta tggaatcatg gagacaatga aggtgggcgc tgcgctcaag
2221 aatgtcaaga ccttggaaga tctaaaggct gctttgaggg atgtgaaatt caatgagtgt
2281 gagatcattt acaggagctc taaatacaga gtctcttcca atggcaaggg ctcagtttct
2341 gttgacaagg ttgaggacca cgcatcccag accgcaaatg aagtgtgctc agcactcctg
2401 aggctcaggc aagcgagggc cagatattat atcagctgct tccaggacct tgtctacacg
2461 ctcatacaag tcgccggggc atcatttgtt gtcaacagaa tctccaagag gttttgctgg
2521 gaaagatggg ttaaaccaac cgagactcag gagacatttg agcccgagaa ggagaccgct
2581 caaagcaggt gggagattga acccaaagat gcagaaccag aaggcaagaa gggtaaaaac
2641 aagaagggaa gaggcaagaa gcacacagcc ttctccagca agggtctgag tgatgaagaa
2701 tatgatgagt acaagagaat cagggaggaa aggaatggaa agtactctat tgaggagtac
2761 ctacaagacc gggaccgata ctacgaagaa gtggcagttg cccgagcaac agaggaagat
2821 ttctgtgaag aggaggaggc caagatcaga cagagggttt tccgcccaac aaggaaacaa
2881 aggaaagagg agagaggagt gctcggcctg gtcaccggct cagacattag aaagaggaaa
2941 ccagatgact ttcaaccaaa aggcaacttg tgggcagatg acaccagagg tgtggactat
3001 aatgagagaa ttgactttga agctccccca agtgtttggt ctagaatagt cccattggga
3061 actggttggg gattctgggt ctcatccaat cttctgatca ctacaacaca tgtcctgcct
3121 aggggactca aagaactctt cggagttgag gttaaacaaa ttcagatcca caaatctggc
3181 gagttttgta gattcagatt cccaagacca atcaggccag atgtcacagg gttggtacta
3241 gaagagggtg ctccagaagg cactgtttgc tccatacttg taaagagacc tacaggagag
3301 atgatccccc tggcggtgag gatgggcact catgcatcca tgaaaatcca gggcaggacc
3361 gtcggcggcc aaatgggaat gcttctcaca ggagcgaatg ccaagaacat ggaccttggc
3421 accggccctg gtgactgcgg ttgtccctac atctataaac gcggcaatga cataatcgtt
3481 gcaggcgtcc ataccgcagc agcccgggga ggtaacactg tcatctgtgc tacccaagga
3541 caagatgggg aggcagtgct tgaagggaac gaaagtcttg gcacttactg tggtgcccca
3601 atcctaggcc ctggcaaggc acccaagctc agcacaaaga ccaaattctg gcgctcatcg
3661 ccagacgcct taccacctgg cacatatgaa cctgcttacc taggaggcaa ggaccctaga
3721 gtggagaaag ggccctccct gcagcaggtc atgagagacc agctaaaacc cttcacggag
3781 cctaggggca aaccaccgag acctgcaatc ctagaagagg ctaagaagac agtgatgaat
3841 gtcctggagc agaccatcga ccctgctaaa ccttggacct actctcaagc atgtgcatca
3901 ctagataaaa ccacctccag tggcagccct caccatgtca ggaagaatga ctactggaat
3961 ggagagtctt tcacaggtcc ccttgcagac caagcatcta aagctaacct catgtatgag
4021 caggccaaac atgtgcagcc catgtacacg gccgccctca aggatgaact tgttaagact
4081 gataaaatct acaaaaagat aaagaagaga ctcctgtggg gatcagacct tggcacgatg
4141 atcaggtgcg ccagggcttt tggtggcctc atggacagca tgaaggcgag ctgcatagct
4201 cttccttgta gggtggggat gaacatgaat gaggatggtc caatcatctt tgacaagcac
4261 tccaagtaca gattccatta tgatgctgac tactcaaggt gggactcaac ccaacaaagg
4321 agtatcctaa ctgccgctat ggaggtgatg gttcggttct ctgcagaacc agagttagca
4381 caagtagtag cagaggatct cttggcacct agtcaactgg atgttggtga ttttgttgtc
4441 tcagtccagg agggtttgcc atcgggtgtt ccatgcacat cacaatggaa ctcgatagcg
4501 cactggattc taaccttaag tgcaatggca gaagtgtcag gcctttcacc agatgttgtc
4561 caggctcatt cctgtttctc cttctatggc gatgatgaga ttgtcagcac cgatatcaac
4621 attgaccctg caaaattgac acagaaactc agggaatatg gccttgtccc cacccggcct
4681 gacaagactg agggtcccct cgtcataact gagaacctag ctggcctgac tttcctccgc
4741 aggtcgatag cgcgggatcc agctgggtgg tttggaaaac tggaccaaga ctcaattctc
4801 agacaactgt actggacaag agggcctaac catgaaaacc catacgaaag catggtcccc
4861 cattcccaac gagctacaca gctcatggcc ctccttggtg aggcctcact acatgggccc
4921 cagttttaca agaaggttag caaaatggtc atcaatgaga tcaaaagtgg tggtctggaa
4981 ttttacgtgc ccagacaaga ggccatgttc aggtggatga gattctctga cctcagcacg
5041 tgggagggcg atcgcaatct tgctcccgag ggtgtgaatg aagatggcgt cgaatgacgc
5101 tactccatct gatgatggtg cagccggcct cgtaccagag atcaacaatg aggttatggc
5161 tcttgaaccc gttgctgggg cctccattgc agcccccgtg gtcgggcaac agaatgtaat
5221 agatccctgg attagaaata actttgtaca agcccctgct ggtgaattta cagtttcccc
5281 tagaaactct cctggagaac tcttacttga tttagaattg ggccctgaac tgaatcccta
5341 tctttcacac ctgtccagga tgtacaatgg gcacgcaggt ggaatggaag tgcagatagt
5401 actggctggg aatgcgttca cagctggtaa gatcctattt gctgccatcc cacctagctt
5461 cccctatgaa aatttgtcac ctgctcaatt gactatgtgc ccccatgtaa tagtggatgt
5521 gagacaacta gaaccagtgc ttctgccaat gccagacata agaaatgttt tctatcacta
5581 taaccaaaac aatagtccca aactcaggct tgtagctatg ctttacactc ctttgagagc
5641 taacaactca ggtgatgacg tgttcacggt gtcttgccgc gttttgacac gcccctctcc
5701 agacttccag ttcacctttc tggtcccacc cacagttgaa tctaaaacta agaactttac
5761 ccttcctgtc cttagggtct cagagatgac aaactcaagg ttccccgctg ttttggacca
5821 aatgtacaca agcaggagtg aaaacatcat tgtccaaccc caaaacggca ggtgcacgct
5881 tgacggtgag ctgctcggca ccaccacctt gcaatctgtg tctatatgca attttagagg
5941 aacaatgcag gcaaagctga atggacaacc acgataccaa ttacaaatca ccaatttgga
6001 tggctcaccc atagacccaa cagatgacat gcctgccccc cttggcacac cagatttcca
6061 ggccatgttg tatggcgttg caagtcaacg ctcccccgca gacaacgcca ctagggcaca
6121 tgaagcacag attgacactg cgggtgacac tttcgccccg aaaattggcc aggtccgttt
6181 cgaatcaggc tctgatgatt ttgacctaca tgaccctaca aagttcacac ccattggtat
6241 caaagtggat gatcagcacc cctttagaca gtggtccctg ccaaactatg gtggtcacct
6301 tgccctgaat aatcatttag cccccgctgt gacaccactc ttccccggcg agcagatttt
6361 gttcttcagg tcacacattc caagcgccgg aggctttgca gacggtgcta tggactgctt
6421 gctgccccaa gagtggatag agcacttcta ccaggaggca gctcctgccc agtctgacat
6481 cgcactggtg aggttcatta accccgatac aggaagagtg ctccttgaag ccaagttgca
6541 caaacagggc ttcctcacag ttgcagcatc tggagaccac cccattgtga tgcccgctaa
6601 tggttatttt aggtttgaag cttgggtcaa ccccttctac actctcgccc ccgtgggaac
6661 tgggtctggg cgcagaagga ttcagtaatg gcaggagctt tccttgcagg tctagcaggt
6721 gacgttgcgg cttctagttt gagctcactc gtgggcgctg gagccaacgc catcaatcag
6781 aaggtggagt acgacttcaa cagacaactc caggaggctt ccttcaaaca tgacaaggat
6841 atgctcagag cccaggttgc agcaacaaca ggcctccaac aggccatgat agatatcaag
6901 cgggaggcat tgaccgcagg cggcttttcc cccgctgatg ctgcaagagg ttcagtcaag
6961 gcgcccatga caacactcct tgattggaat ggctctaggc attgggcacc caactccatg
7021 aggacaactg gctattcagg cacatttact tcccagggca ttagaagctc cccccacctg
7081 tctaatcaaa ctccaagtgc tgtcaaaccc actaaaacct tgccatctat atctagttct
7141 tctagtgtgt atagctctcc ttctactgcc ccctcgcaat caacacaatc aactacgctg
7201 tctgcaggaa cagggtcgtc caggcctaac accgtgtcca caaagacctc cacactgtcg
7261 aggacaagtg actgggtcag agatcaaaat cagatgattg gcccgttcat gaatggtgca
7321 cttcaaactg cttatgtcac tccaccatcg agcagggcct catcacaagg gacggtctcg
7381 accgtaccca aggctgtttt ggactcctgg actcctatgt tcaacaccca caggcagcct
7441 ctcttcgccc acatgcgtag gcgaggggag tcacagactt agtgaaaagg atgattaggg
7501 cttttctttc ctttc
//