LOCUS C_AA014213 29762 bp ss-RNA linear VRL 11-MAY-2023
DEFINITION Severe acute respiratory syndrome coronavirus 2 isolate
SARS-CoV-2/human/CHN/SH-HG20230505-525/2023 ORF1ab polyprotein
(ORF1ab), ORF1a polyprotein (ORF1ab), surface glycoprotein (S),
ORF3a protein (ORF3a), envelope protein (E), membrane glycoprotein
(M), ORF6 protein (ORF6), ORF7a protein (ORF7a), and ORF7b (ORF7b)
genes, complete cds; ORF8 gene, complete sequence; and nucleocapsid
phosphoprotein (N) and ORF10 protein (ORF10) genes, complete cds.
ACCESSION C_AA014213
VERSION C_AA014213.1
KEYWORDS .
SOURCE Severe acute respiratory syndrome coronavirus 2
ORGANISM Severe acute respiratory syndrome coronavirus 2
Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Nidovirales; Cornidovirineae; Coronaviridae; Orthocoronavirinae;
Betacoronavirus; Sarbecovirus; Severe acute respiratory
syndrome-related coronavirus.
REFERENCE 1 (bases 1 to 29762)
AUTHORS Zhang,W.
TITLE Direct Submission
JOURNAL Submitted (11-MAY-2023) Microbe lab, Shanghai Municipal Center for
Disease Control & Prevention, west zhongshan road 1380, Shanghai
200336, China
COMMENT ##Genome-Assembly-Data-START##
Assembly Method :: Consensus sequence method v. 940-000133-00
Sequencing Technology :: MGISEQ-200
##Genome-Assembly-Data-END##
.
FEATURES Location/Qualifiers
source 1..29762
/organism="Severe acute respiratory syndrome coronavirus 2"
/mol_type="genomic RNA"
/isolate="SARS-CoV-2/human/CHN/SH-HG20230505-525/2023"
/isolation_source="Pharyngeal swab"
/host="Homo sapiens; Host_age: unknown; Host_sex: Male"
/country="China:Shanghai"
/collection_date="2023-05-04"
/note="Passage_details/history: Original;
Additional_host_information: Patient infected while
traveling in The United Arab Emirates"
gene 242..21513
/gene="ORF1ab"
CDS join(242..13426,13426..21513)
/gene="ORF1ab"
/ribosomal_slippage
/codon_start=1
/product="ORF1ab polyprotein"
/protein_id="C_AAB29406.1"
/translation="MESLVPGFNEKTHVQLSLPVLQVRDVLVRGFGDSVEEVLSEARQH
LRDGTCGLVEVEKGVLPQLEQPYVFIKRSDARTAPHVVELVAELEGIQYGRSGETLGVL
VPHVGEIPVAYRKVLLRKNGNKGAGGHRYGADLKSFDLGDELGTDPYEDFQENWNTKHS
SGVTRELMRELNGGAYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTK
RGVYCCREHEHEIAWYTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTI
QPRVEKKKLDGFMGRIRSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEF
CGTENLTKEGATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGR
TIAFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNI
NIVGDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGA
WNIGEQKSILSPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLR
LIDAMMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEG
VEFLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGG
AKLKALNLGETFVTHSKGLYRKCVKSREETGLLMPLKAPKEIIFLEGETLPTKVLTEEV
VLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTL
KGGAPTKVTFGDDTVIEVQGYKSVNIIFELDERIDKVLNEKCSAYTVELGTEVNEFACV
VADAVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEE
GDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQD
GSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKK
VKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL
AKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTV
RTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQD
DKKIKACVEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIV
GDVVQEGVLTAVVIPTKKASGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVL
KKCKSAFYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRK
YKGIKIQEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAAR
YMRSLKVPATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQL
GIEFLKRGDKSVYYTSNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQ
VVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPS
FLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYY
RARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQ
ITLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKH
GTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTI
KPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIK
FADDLNQLTGYKKPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVN
NATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVEN
PTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNEL
SRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYF
FTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIII
WFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSV
CLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQL
FFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSST
CMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISD
EVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDN
LRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAE
VAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDS
DVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSARHINAQV
AKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKG
GKIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIA
STDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGD
FLHFLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVL
EGSVAYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCV
STSGRWVLNNDYYRSLPGVFCGVDAVNLFTNMFTPLIQPIGALDISASIVAGGIVAIVV
TCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFIVLCLTPVYSFLPGVYSVIYLYLTFYL
TNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTF
EEAALCTFLLNKEMYLKLRSDVLLPFTQYNRYLALYNKYKYFSGAMDTTSYREAACCHL
AKALNDFSNSGSDVLYQPPQISITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGL
WLDDVVYCPRHVICTSEDMLNPNYEDLLIRKSNHNFLVQAGNVQLRVIGHSMQNCVLKL
KVDTANPKTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRHNFTIKGSFLNGSCGSV
GFNIDYDCVSFCYMHHMELPTGVHAGTDLEGNFYGPFVDRQTAQAAGTDTTITVNVLAW
LYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCA
SLKELLQNGMNGRTILGSALLEDEFTPFDVVRQCSGVTFQSAVKRTIKGTHHWLLLTIL
TSLLVLVQSTQWSLFFFLYENAFLPFAMGIIAMSAFAMMFVKHKHAFLCLFLLPSLATV
AYFNMVYMPASWVMRIMTWLDMVDTSLKLKDCVMYASAVVLLILMTARTVYDDGARRVW
TLMNVLTLVYKVYYGNALDQAISMWALIISVTSNYSGVVTTVMFLARGIVFMCVEYCPI
FFITGNTLQCIMLVYCFLGYFCTCYFGLFCLLNRYFRLTLGVYDYLVSTQEFRYMNSQG
LLPPKNSIDAFKLNIKLLGVGGKPCIKVATVQSKMSDVKCTSVVLLSVLQQLRVESSSK
LWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLLSMQGAVDINKLCEEMLDNRATLQAIA
SEFSSLPSYAAFATAQEAYEQAVANGDSEVVLKKLKKSLNVAKSEFDRDAAMQRKLEKM
ADQAMTQMYKQARSEDKRAKVTSAMQTMLFTMLRKLDNDALNNIINNARDGCVPLNIIP
LTTAAKLMVVIPDYNTYKNTCDGTTFTYASALWEIQQVVDADSKIVQLSEISMDNSPNL
AWPLIVTALRANSAVKLQNNELSPVALRQMSCAAGTTQTACTDDNALAYYNTTKGGRFV
LALLSDLQDLKWARFPKSDGTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRG
MVLGSLAATVRLQAGNATEVPANSTVLSFCAFAVDAAKAYKDYLASGGQPITNCVKMLC
THTGTGQAITVTPEANMDQESFGGASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTTCAN
DPVGFTLKNTVCTVCGMWKGYGCSCDQLREPMLQSADAQSFLNRVCGVSAARLTPCGTG
TSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDNLIDSYFVVKRHTFSNYQHEE
TIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLK
EILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQALLKTVQFCDAMRNAGIV
GVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPILTLTRALTAESHVDTDL
TKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLDDRCILHCANFNVLFSTV
FPLTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSRLSFKELLVYAADPA
MHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVSKGFFKEGSSVELK
HFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNN
LDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRART
VAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLM
GWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGSSLY
VKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYR
NRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNV
FMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVKTD
GTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSVMLTND
NTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDHVIPT
SHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLYKNT
CVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIATVR
EVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYGDAVVYRGT
TTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHYVRITGLYPTLNISDEFSSNVANYQKVG
MQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCSR
IIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARL
CAKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVD
TVSALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAWRKA
VFISPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITRA
KVGILCIMSDRDLYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKVITGLHPTQAPTH
LSVDTKFKTEGLCVDVPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRA
WIGFDVEGCHATREAVGTNLPLQLGFSTGVNLVAVPTGYVDTPNNTDFSRVSAKPPPGD
QFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKNLSDRVVFVLWAHGFELTSMKYFVKIGP
ERTCCLCDRRATCFSTASDTYACWHHSIGFDYVYNPFMIDVQQWGFTGNLQSNHDLYCQ
VHGNAHVASCDAIMTRCLAVHECFVKRVDWTIEYPIIGDELKINAACRKVQHMVVKAAL
LADKFPVLHDIGNPKAIKCVPQADVEWKFYDAQPCSDKAYKIEELFYSYATHSDKFTDG
VCLFWNCNVDRYPANSIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFVNL
KQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRLYLDAY
NMMISAGFSLWVYKQFDTYNLWNTFTRLQSLENVAFNVVNKGHFDGQQGEVPVSIINNT
VYTKVDGVDVELFENKTTLPVNVAFELWAKRNIKPVPEVKILNNLGVDIAANTVIWDYK
RDAPAHISTIGVCSMTDIAKKPIETICAPLTVFFDGRVDGQVDLFRNARNGVLITEGSV
KGLQPSVGPKQASLNGVTLIGEAVKTQFNYYKKVDGVVQQLPETYFTQSRNLQEFKPRS
QMEIDFLELAMDEFIERYKLEGYAFEHIVYGDFSHSQLGGLHLLIGLAKRFKESPFELE
DFIPMDSTVKNYFITDAQTGSSKCVCSVIDLLLDDFVEIIKSQDLSVVSKVVKVTIDYT
EISFMLWCKDGHVETFYPKLQSSQAWQPGVAMPNLYKMQRMLLEKCDLQNYGDSATLPK
GIMMNVAKYTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGTAVLRQWLPTGTLLVD
SDLNDFVSDADSTLIGDCATVHTANKWDLIISDMYDPKTKNVTKENDSKEGFFTYICGF
IQQKLALGGSVAIKITEHSWNADLYKLMGHFAWWTAFVTNVNASSSEAFLIGCNYLGKP
REQIDGYVMHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSLKEGQINDMILSL
LSKGRLIIRENNRVVISSDVLVNN"
mat_peptide 242..772
/gene="ORF1ab"
/product="leader protein"
mat_peptide 773..2686
/gene="ORF1ab"
/product="nsp2"
mat_peptide 2687..8521
/gene="ORF1ab"
/product="nsp3"
mat_peptide 8522..10021
/gene="ORF1ab"
/product="nsp4"
mat_peptide 10022..10939
/gene="ORF1ab"
/product="3C-like proteinase"
mat_peptide 10940..11800
/gene="ORF1ab"
/product="nsp6"
mat_peptide 11801..12049
/gene="ORF1ab"
/product="nsp7"
mat_peptide 12050..12643
/gene="ORF1ab"
/product="nsp8"
mat_peptide 12644..12982
/gene="ORF1ab"
/product="nsp9"
mat_peptide 12983..13399
/gene="ORF1ab"
/product="nsp10"
mat_peptide join(13400..13426,13426..16194)
/gene="ORF1ab"
/product="RNA-dependent RNA polymerase"
mat_peptide 16195..17997
/gene="ORF1ab"
/product="helicase"
mat_peptide 17998..19578
/gene="ORF1ab"
/product="3'-to-5' exonuclease"
mat_peptide 19579..20616
/gene="ORF1ab"
/product="endoRNAse"
mat_peptide 20617..21510
/gene="ORF1ab"
/product="2'-O-ribose methyltransferase"
CDS 242..13441
/gene="ORF1ab"
/codon_start=1
/product="ORF1a polyprotein"
/protein_id="C_AAB29409.1"
/translation="MESLVPGFNEKTHVQLSLPVLQVRDVLVRGFGDSVEEVLSEARQH
LRDGTCGLVEVEKGVLPQLEQPYVFIKRSDARTAPHVVELVAELEGIQYGRSGETLGVL
VPHVGEIPVAYRKVLLRKNGNKGAGGHRYGADLKSFDLGDELGTDPYEDFQENWNTKHS
SGVTRELMRELNGGAYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTK
RGVYCCREHEHEIAWYTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTI
QPRVEKKKLDGFMGRIRSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEF
CGTENLTKEGATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGR
TIAFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNI
NIVGDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGA
WNIGEQKSILSPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLR
LIDAMMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEG
VEFLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGG
AKLKALNLGETFVTHSKGLYRKCVKSREETGLLMPLKAPKEIIFLEGETLPTKVLTEEV
VLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTL
KGGAPTKVTFGDDTVIEVQGYKSVNIIFELDERIDKVLNEKCSAYTVELGTEVNEFACV
VADAVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEE
GDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQD
GSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKK
VKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL
AKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTV
RTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQD
DKKIKACVEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIV
GDVVQEGVLTAVVIPTKKASGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVL
KKCKSAFYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRK
YKGIKIQEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAAR
YMRSLKVPATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQL
GIEFLKRGDKSVYYTSNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQ
VVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPS
FLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYY
RARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQ
ITLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKH
GTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTI
KPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIK
FADDLNQLTGYKKPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVN
NATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVEN
PTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNEL
SRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYF
FTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIII
WFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSV
CLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQL
FFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSST
CMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISD
EVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDN
LRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAE
VAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDS
DVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSARHINAQV
AKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKG
GKIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIA
STDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGD
FLHFLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVL
EGSVAYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCV
STSGRWVLNNDYYRSLPGVFCGVDAVNLFTNMFTPLIQPIGALDISASIVAGGIVAIVV
TCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFIVLCLTPVYSFLPGVYSVIYLYLTFYL
TNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTF
EEAALCTFLLNKEMYLKLRSDVLLPFTQYNRYLALYNKYKYFSGAMDTTSYREAACCHL
AKALNDFSNSGSDVLYQPPQISITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGL
WLDDVVYCPRHVICTSEDMLNPNYEDLLIRKSNHNFLVQAGNVQLRVIGHSMQNCVLKL
KVDTANPKTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRHNFTIKGSFLNGSCGSV
GFNIDYDCVSFCYMHHMELPTGVHAGTDLEGNFYGPFVDRQTAQAAGTDTTITVNVLAW
LYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCA
SLKELLQNGMNGRTILGSALLEDEFTPFDVVRQCSGVTFQSAVKRTIKGTHHWLLLTIL
TSLLVLVQSTQWSLFFFLYENAFLPFAMGIIAMSAFAMMFVKHKHAFLCLFLLPSLATV
AYFNMVYMPASWVMRIMTWLDMVDTSLKLKDCVMYASAVVLLILMTARTVYDDGARRVW
TLMNVLTLVYKVYYGNALDQAISMWALIISVTSNYSGVVTTVMFLARGIVFMCVEYCPI
FFITGNTLQCIMLVYCFLGYFCTCYFGLFCLLNRYFRLTLGVYDYLVSTQEFRYMNSQG
LLPPKNSIDAFKLNIKLLGVGGKPCIKVATVQSKMSDVKCTSVVLLSVLQQLRVESSSK
LWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLLSMQGAVDINKLCEEMLDNRATLQAIA
SEFSSLPSYAAFATAQEAYEQAVANGDSEVVLKKLKKSLNVAKSEFDRDAAMQRKLEKM
ADQAMTQMYKQARSEDKRAKVTSAMQTMLFTMLRKLDNDALNNIINNARDGCVPLNIIP
LTTAAKLMVVIPDYNTYKNTCDGTTFTYASALWEIQQVVDADSKIVQLSEISMDNSPNL
AWPLIVTALRANSAVKLQNNELSPVALRQMSCAAGTTQTACTDDNALAYYNTTKGGRFV
LALLSDLQDLKWARFPKSDGTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRG
MVLGSLAATVRLQAGNATEVPANSTVLSFCAFAVDAAKAYKDYLASGGQPITNCVKMLC
THTGTGQAITVTPEANMDQESFGGASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTTCAN
DPVGFTLKNTVCTVCGMWKGYGCSCDQLREPMLQSADAQSFLNGFAV"
mat_peptide 242..772
/gene="ORF1ab"
/product="leader protein"
mat_peptide 773..2686
/gene="ORF1ab"
/product="nsp2"
mat_peptide 2687..8521
/gene="ORF1ab"
/product="nsp3"
mat_peptide 8522..10021
/gene="ORF1ab"
/product="nsp4"
mat_peptide 10022..10939
/gene="ORF1ab"
/product="3C-like proteinase"
mat_peptide 10940..11800
/gene="ORF1ab"
/product="nsp6"
mat_peptide 11801..12049
/gene="ORF1ab"
/product="nsp7"
mat_peptide 12050..12643
/gene="ORF1ab"
/product="nsp8"
mat_peptide 12644..12982
/gene="ORF1ab"
/product="nsp9"
mat_peptide 12983..13399
/gene="ORF1ab"
/product="nsp10"
mat_peptide 13400..13438
/gene="ORF1ab"
/product="nsp11"
stem_loop 13434..13461
/gene="ORF1ab"
/note="Coronavirus frameshifting stimulation element
stem-loop 1"
stem_loop 13446..13500
/gene="ORF1ab"
/note="Coronavirus frameshifting stimulation element
stem-loop 2"
gene 21521..25330
/gene="S"
CDS 21521..25330
/gene="S"
/codon_start=1
/product="surface glycoprotein"
/protein_id="C_AAB29410.1"
/translation="MFVFLVLLPLVSSQCVNLITRTQSYTNSFTRGVYYPDKVFRSSVL
HSTQDLFLPFFSNVTWFHAIHVSGTNGTKRFDNPALPFNDGVYFASTEKSNIIRGWIFG
TTLDSKTQSLLIVNNATNVVIKVCEFQFCNDPFLDVYQKNNKSWMESEFRVYSSANNCT
FEYVSQPFLMDLEGKEGNFKNLREFVFKNIDGCFKIYSKHTPTNLERDLPQGFSALEPL
VDLPIGINITRFQTLLALHRSYLTPVDSSSGWTAGAAAYYVGYLQPRTFLLKYNENGTI
TDAVDCALDPLSETKCTLKSFTVEKGIYQTSNFRVQPTESIVRFPNITNLCPFHEVFNA
TTFASVYAWNRKRISNCVADYSVIYNFAPFFAFKCYGVSPTKLNDLCFTNVYADSFVIR
GNEVSQIAPGQTGNIADYNYKLPDDFTGCVIAWNSNKLDSKPSGNYNYLYRLFRKSKLK
PFERDISTEIYQAGNKPCNGVAGPNCYSPLQSYGFRPTYGVGHQPYRVVVLSFELLHAP
ATVCGPKKSTNLVKNKCVNFNFNGLTGTGVLTESNKKFLPFQQFGRDIADTTDAVRDPQ
TLEILDITPCSFGGVSVITPGTNTSNQVAVLYQGVNCTEVPVAIHADQLTPTWRVYSTG
SNVFQTRAGCLIGAEYVNNSYECDIPIGAGICASYQTQTKSHRRARSVASQSIIAYTMS
LGAENSVAYSNNSIAIPTNFTISVTTEILPVSMTKTSVDCTMYICGDSTECSNLLLQYG
SFCTQLKRALTGIAVEQDKNTQEVFAQVKQIYKTPPIKYFGGFNFSQILPDPSKPSKRS
FIEDLLFNKVTLADAGFIKQYGDCLGDIAARDLICAQKFNGLTVLPPLLTDEMIAQYTS
ALLAGTITSGWTFGAGAALQIPFAMQMAYRFNGIGVTQNVLYENQKLIANQFNSAIGKI
QDSLSSTASALGKLQDVVNHNAQALNTLVKQLSSKFGAISSVLNDILSRLDKVEAEVQI
DRLITGRLQSLQTYVTQQLIRAAEIRASANLAATKMSECVLGQSKRVDFCGKGYHLMSF
PQSAPHGVVFLHVTYVPAQEKNFTTAPAICHDGKAHFPREGVFVSNGTHWFVTQRNFYE
PQIITTDNTFVSGNCDVVIGIVNNTVYDPLQPELDSFKEELDKYFKNHTSPDVDLGDIS
GINASVVNIQKEIDRLNEVAKNLNESLIDLQELGKYEQYIKWPWYIWLGFIAGLIAIVM
VTIMLCCMTSCCSCLKGCCSCGSCCKFDEDDSEPVLKGVKLHYT"
gene 25339..26166
/gene="ORF3a"
CDS 25339..26166
/gene="ORF3a"
/codon_start=1
/product="ORF3a protein"
/protein_id="C_AAB29411.1"
/translation="MDLFMRIFTIGTVTLKQGEIKDATPSDFVRATATIPIQASLPFGW
LIVGVALLAVFQSASKIITLKKRWQLALSKGVHFVCNLLLLFVTVYSHLLLVAAGLEAP
FLYLYALVYFLQSINFVRIIMRLWLCWKCRSKNPLLYDANYFLCWHTNCYDYCIPYNSV
TSSIVITSGDGTTSPISEHDYQIGGYTEKWESGVKDCVVLHSYFTSDYYQLYSTQLSTD
IGVEHVTFFIYNKIVDEPEEHVQIHTIDGSSGVVNPVMEPIYDEPTTTTSVPL"
gene 26191..26418
/gene="E"
CDS 26191..26418
/gene="E"
/codon_start=1
/product="envelope protein"
/protein_id="C_AAB29412.1"
/translation="MYSFVSEEIGALIVNSVLLFLAFVVFLLVTLAILTALRLCAYCCN
IVNVSLVKPSFYVYSRVKNLNSSRVPDLLV"
gene 26469..27137
/gene="M"
CDS 26469..27137
/gene="M"
/codon_start=1
/product="membrane glycoprotein"
/protein_id="C_AAB29413.1"
/translation="MADSNGTITVEELKKLLEEWNLVIGFLFLTWICLLQFAYANRNRF
LYIIKLIFLWLLWPVTLTCFVLAAVYRINWITGGIAIAMACLVGLMWLSYFIASFRLFA
RTRSMWSFNPETNILLNVPLHGTILTRPLLESELVIGAVILRGHLRIAGHHLGRCDIKD
LPKEITVATSRTLSYYKLGASQRVAGDSGFAAYSRYRIGNYKLNTDHSSSSDNIALLVQ
"
gene 27148..27333
/gene="ORF6"
CDS 27148..27333
/gene="ORF6"
/codon_start=1
/product="ORF6 protein"
/protein_id="C_AAB29414.1"
/translation="MFHLVDFQVTIAEILLIIMRTFKVSIWNLDYIINLIIKNLSKSLT
ENKYSQLDEEQPMEIL"
gene 27340..27705
/gene="ORF7a"
CDS 27340..27705
/gene="ORF7a"
/codon_start=1
/product="ORF7a protein"
/protein_id="C_AAB29415.1"
/translation="MKIILFLALITLATCELYHYQECVRGTTVLLKEPCSSGTYEGNSP
FHPLADNKFALTCFSTQFAFACPDGVKHVYQLRARSVSPKLFIRQEEVQELYSPIFLIV
AAIVFITLCFTLKRKTE"
gene 27702..27833
/gene="ORF7b"
CDS 27702..27833
/gene="ORF7b"
/codon_start=1
/product="ORF7b"
/protein_id="C_AAB29416.1"
/translation="MIELSLIDFYLCFLAFLLFLVLIMLIIFWFSLELQDHNETCHA"
gene 27840..28205
/gene="ORF8"
misc_feature 27840..28205
/gene="ORF8"
/note="similar to ORF8 protein"
gene 28220..29470
/gene="N"
CDS 28220..29470
/gene="N"
/codon_start=1
/product="nucleocapsid phosphoprotein"
/protein_id="C_AAB29407.1"
/translation="MSDNGPQNQRNALRITFGGPSDSTGSNQNGGARSKQRRPQGLPNN
TASWFTALTQHGKEDLKFPRGQGVPINTNSSPDDQIGYYRRATRRIRGGDGKMKDLSPR
WYFYYLGTGPEAGLPYGANKDGIIWVATEGALNTPKDHIGTRNPANNAAIVLQLPQGTT
LPKGFYAEGSRGGSQASSRSSSRSRNSSRNSTPGSSKRTSPARMAGNGGDAALALLLLD
RLNQLESKMSGKGQQQQGQTVTKKSAAEASKKPRQKRTATKAYNVTQAFGRRGPEQTQG
NFGDQELIRQGTDYKHWPQIAQFAPSASAFFGMSRIGMEVTPSGTWLTYTGAIKLDDKD
PNFKDQVILLNKHIDAYKTFPPTEPKKDKKKKADETQALPQRQKKQQTVTLLPAADLDD
FSKQLQQSMSRADSTQA"
gene 29495..29611
/gene="ORF10"
CDS 29495..29611
/gene="ORF10"
/codon_start=1
/product="ORF10 protein"
/protein_id="C_AAB29408.1"
/translation="MGYINVFAFPFTIYSLLLCRMNSRNYIAQVDVVNFNLT"
stem_loop 29546..29581
/gene="ORF10"
/note="Coronavirus 3' UTR pseudoknot stem-loop 1"
stem_loop 29566..29594
/gene="ORF10"
/note="Coronavirus 3' UTR pseudoknot stem-loop 2"
stem_loop 29665..29679
/note="Coronavirus 3' stem-loop II-like motif (s2m)"
ORIGIN
1 taacaaacca accaactttc gatctcttgt agatctgttc tctaaacgaa ctttaaaatc
61 tgtgtggctg tcactcggct gcatgcttag tgcactcacg cagtataatt aataactaat
121 tactgtcgtt gacaggacac gagtaactcg tctatcttct gcaggctgct tacggtttcg
181 tccgtgttgc agccgatcat cagcacatct aggttttgtc agggtgtgac cgaaaggtaa
241 gatggagagc cttgtccctg gtttcaacga gaaaacacac gtccaactca gtttgcctgt
301 tttacaggtt cgcgacgtgc tcgtacgtgg ctttggagac tccgtggagg aggtcttatc
361 agaggcacgt caacatctta gagatggcac ttgtggctta gtagaagttg aaaaaggcgt
421 tttgcctcaa cttgaacagc cctatgtgtt catcaaacgt tcggatgctc gaactgcacc
481 tcatgtggtt gagctggtag cagaactcga aggcattcag tacggtcgta gtggtgagac
541 acttggtgtc cttgtccctc atgtgggcga aataccagtg gcttaccgca aggttcttct
601 tcgtaagaac ggtaataaag gagctggtgg ccataggtac ggcgccgatc taaagtcatt
661 tgacttaggc gacgagcttg gcactgatcc ttatgaagat tttcaagaaa actggaacac
721 taaacatagc agtggtgtta cccgtgaact catgcgtgag cttaacggag gggcatacac
781 tcgctatgtc gataacaact tctgtggccc tgatggctac cctcttgagt gcattaaaga
841 ccttctagca cgtgctggta aagcttcatg cactttgtcc gaacaactgg actttattga
901 cactaagagg ggtgtatact gctgccgtga acatgagcat gaaattgctt ggtacacgga
961 acgttctgaa aagagctatg aattgcagac accttttgaa attaaattgg caaagaaatt
1021 tgacaccttc aatggggaat gtccaaattt tgtatttccc ttaaattcca taatcaagac
1081 tattcaacca agggttgaaa agaaaaagct tgatggcttt atgggtagaa ttcgatctgt
1141 ctatccagtt gcgtcaccaa atgaatgcaa ccaaatgtgc ctttcaactc tcatgaagtg
1201 tgatcattgt ggtgaaactt catggcagac gggcgatttt gttaaagcca cttgcgaatt
1261 ttgtggcact gagaatttga ctaaagaagg tgccactact tgtggttact taccccaaaa
1321 tgctgttgtt aaaatttatt gtccagcatg tcacaattca gaagtaggac ctgagcatag
1381 tcttgccgaa taccataatg aatctggctt gaaaaccatt cttcgtaagg gtggtcgcac
1441 tattgccttt ggaggctgtg tgttctctta tgttggttgc cataacaagt gtgcctattg
1501 ggttccacgt gctagcgcta acataggttg taaccataca ggtgttgttg gagaaggttc
1561 cgaaggtctt aatgacaacc ttcttgaaat actccaaaaa gagaaagtca acatcaatat
1621 tgttggtgac tttaaactta atgaagagat cgccattatt ttggcatctt tttctgcttc
1681 cacaagtgct tttgtggaaa ctgtgaaagg tttggattat aaagcattca aacaaattgt
1741 tgaatcctgt ggtaatttta aagttacaaa aggaaaagct aaaaaaggtg cctggaatat
1801 tggtgaacag aaatcaatac tgagtcctct ttatgcattt gcatcagagg ctgctcgtgt
1861 tgtacgatca attttctccc gcactcttga aactgctcaa aattctgtgc gtgttttaca
1921 gaaggccgct ataacaatac tagatggaat ttcacagtat tcactgagac tcattgatgc
1981 tatgatgttc acatctgatt tggctactaa caatctagtt gtaatggcct acattacagg
2041 tggtgttgtt cagttgactt cgcagtggct aactaacatc tttggcactg tttatgaaaa
2101 actcaaaccc gtccttgatt ggcttgaaga gaagtttaag gaaggtgtag agtttcttag
2161 agacggttgg gaaattgtta aatttatctc aacctgtgct tgtgaaattg tcggtggaca
2221 aattgtcacc tgtgcaaagg aaattaagga gagtgttcag acattcttta agcttgtaaa
2281 taaatttttg gctttgtgtg ctgactctat cattattggt ggagctaaac ttaaagcctt
2341 gaatttaggt gaaacatttg tcacgcactc aaagggattg tacagaaagt gtgttaaatc
2401 cagagaagaa actggcctac tcatgcctct aaaagcccca aaagaaatta tcttcttaga
2461 gggagaaaca cttcccacaa aagtgttaac agaggaagtt gtcttgaaaa ctggtgattt
2521 acaaccatta gaacaaccta ctagtgaagc tgttgaagct ccattggttg gtacaccagt
2581 ttgtattaac gggcttatgt tgctcgaaat caaagacaca gaaaagtact gtgcccttgc
2641 acctaatatg atggtaacaa acaatacctt cacactcaaa ggcggtgcac caacaaaggt
2701 tacttttggt gatgacactg tgatagaagt gcaaggttac aagagtgtga atatcatttt