LOCUS C_AA103822 29760 bp ss-RNA linear VRL 06-JAN-2025
DEFINITION Severe acute respiratory syndrome coronavirus 2 isolate
SARS-CoV-2/Human/CHN/HLJCDC-2239/2024 ORF1ab polyprotein (ORF1ab),
ORF1a polyprotein (ORF1ab), surface glycoprotein (S), ORF3a protein
(ORF3a), envelope protein (E), membrane glycoprotein (M), ORF6
protein (ORF6), ORF7a protein (ORF7a), ORF7b (ORF7b), ORF8 protein
(ORF8), nucleocapsid phosphoprotein (N), and ORF10 protein (ORF10)
genes, complete cds.
ACCESSION C_AA103822
VERSION C_AA103822.1
KEYWORDS .
SOURCE Severe acute respiratory syndrome coronavirus 2
ORGANISM Severe acute respiratory syndrome coronavirus 2
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Nidovirales; Cornidovirineae; Coronaviridae; Orthocoronavirinae;
Betacoronavirus; Sarbecovirus; Severe acute respiratory
syndrome-related coronavirus.
REFERENCE 1 (bases 1 to 29760)
AUTHORS Xu,J.
TITLE Direct Submission
JOURNAL Submitted (06-JAN-2025) Institute for Viral Disease Control and
Prevention, Department for Viral Disease Control and Prevention,
Heilongjiang Provincial Center for Disease Control and Prevention,
40# Youfang Street, Xiangfang District, Harbin, Heilongjiang 150000,
China
COMMENT ##Genome-Assembly-Data-START##
Assembly Method :: CLC Genomics Workbench v. Sion23.0
Genome Coverage :: 96
Sequencing Technology :: Illumina; MGI; Nanopore
##Genome-Assembly-Data-END##
.
FEATURES Location/Qualifiers
source 1..29760
/organism="Severe acute respiratory syndrome coronavirus 2"
/mol_type="genomic RNA"
/isolate="SARS-CoV-2/Human/CHN/HLJCDC-2239/2024"
/isolation_source="oronasopharynx"
/host="Homo sapiens; Host_age: 62 years; Host_age_unit:
year; Host_sex: Female"
/country="China:Heilongjiang"
/collection_date="2024-10-09"
gene 257..21537
/gene="ORF1ab"
CDS join(257..13450,13450..21537)
/gene="ORF1ab"
/ribosomal_slippage
/codon_start=1
/product="ORF1ab polyprotein"
/protein_id="C_AAK66097.1"
/translation="MESLVPGFNEKTHVQLSLPVLQVRDVLVRGFGDSVEEVLSEARQH
LKDGTCGLVEVEKGVLPQLEQPYVFIKRSDARTAPHGHVMVELVAELEGIQYGRSGETL
GVLVPHVGEIPVAYRKVLLRKNGNKGAGGHRYGADLKSFDLGDELGTDPYEDFQENWNT
KHSSGVTRELMRELNGGAYTRYVDNNFCGPDGYPLECIKDLLARAGKDSCTLSEQLDFI
DTKRGVYCCREHEHEIAWYTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSII
KTIQPRVEKKKLDGFMGRIRSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKAT
CEFCGTENLTKEGATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRK
GGRTIAFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEK
VNINIVGDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAK
KGAWNIGEQKSILSPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQY
SLRLIDAMMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKF
KEGVEFLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSII
IGGAKLKALNLGETFVTHSKGLYRKCVKSREETGLLMPLKAPKEIIFLEGETLPTEVLT
EEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPNMMVTNNT
FTLKGGAPTKVTFGDDTVIEVQGYKSVNIIFELDERIDKVLNEKCSAYTVELGTEVNEF
ACVVADAVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDED
EEEGDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVG
QQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEE
AKKVKPTLVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSG
HNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCV
DTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQR
EQDDKKIKACVEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAP
YIVGDVVQEGVLTAVVIPTKKASGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAK
TVLKKCKSAFYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTI
QRKYKGIKIQEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEE
AARYMRSLKVPATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQS
TQLGIEFLKRGDKSVYYTSNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINL
HTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTT
DPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQD
AYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCG
QQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYE
LKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYT
TTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCD
NIKFADDLNQLTGYKKPASRELKVTFFPDLNGDVVAIDYRHYTPSFKKGAKLLHKPIVW
HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEV
VENPTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKP
NELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYM
PYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLIN
IIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIP
CSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAI
MQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCN
SSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTF
ISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVN
LDSLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGD
SAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQGF
VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSARHIN
AQVAKSHNITLIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIA
LKGGKIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTR
DIASTDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTT
NGDFLHFLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDT
NVLEGSVAYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAG
VCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLFTNMFTPLIQPIGALDISASIVAGGIVA
IVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFIVLCLTPVYSFLPGVYSVIYLYLT
FYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSF
STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAAC
CHLTKALNDFSNSGSDVLYQPPQISITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTL
NGLWLDDVVYCPRHVICTSEDMLNPNYEDLLIRKSNHNFLVQAGNVQLRVIGHSMQNCV
LKLKVDTANPKTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRHNFTIKGSFLNGSC
GSVGFNIDYDCVSFCYMHHMELPTGVHAGTDLEGNFYGPFVDRQTAQAAGTDTTITVNV
LAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLD
MCASLKELLQNGMNGRTILGSALLEDEFTPFDVVRQCSGVTFQSAVKRTIKGTHHWLLL
TILTSLLFLVQSTQWSLFFFLYENAFLPFAMGIIAMSAFAMMFVKHKHAFLCLFLLPSL
ATVAYFNMVYMPASWVMRIMTWLDMVDTSLKLKDCVMYASAVVLLILMTARTVYDDGAR
RVWTLMNVLTLVYKVYYGNALDQAISMWALIISVTSNYSGVVTTVMFLARGIVFMCVEY
CPIFFITGNTLQCIMLVYCFLGYFCTCYFGLFCLLNRYFRLTLGVYDYLVSTQEFKYMN
SQGLLPPKNSIDAFKLNIKLLGVGGKPCIKVATVQSKMSDVKCTSVVLLSVLQQLRVES
SSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLLSMQGAVDINKLCEEMLDNRATLQ
AIASEFSSLPSYAAFATAQEAYEQAVANGDSEVVLKKLKKSLNVAKSEFDRDAAMQRKL
EKMADQAMTQMYKQARSEDKRAKVTSAMQTMLFTMLRKLDNDALNNIINNARDGCVPLN
IIPLTTAAKLMVVIPDYNTYKNTCDGTTFTYASALWEIQQVVDADSKIVQLSEISMDNS
PNLAWPLIVTALRANSAVKLQNNELSPVALRQMSCAAGTTQTACTDDNALAYYNTIKGG
RFVLALLSDLQDLKWARFPKSDGTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNL
NRGMVLGSLAATVRLQAGNATEVPANSTVLSFCAFAVDAAKAYKDYLASGGQPITNCVK
MLCTHTGTGQAITVTPEANMDQESFGGASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTT
CANDPVGFTLKNTVCTVCGMWKGYGCSCDQLREPMLQSADAQSFLNRVCGVSAARLTPC
GTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDNLIDSYFVVKRHTFSNYQ
HEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTMADLVYALRHFDEGNCD
TLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQALLKTVQFCDAMRNA
GIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPILTLTRALTAESHVD
TDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLDDRCILHCANFNVLF
STVFPLTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSRLSFKELLVYAA
DPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVSKGFFKEGSSV
ELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVI
VNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNR
ARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENP
HLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGG
SLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYEC
LYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQ
NNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIV
KTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSVML
TNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDHV
ISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLY
KNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIA
TVREVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYGDAVVY
RGTTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHYVRITGLYPTLNISDEFSSNVANYQ
KVGMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDK
CSRIIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVN
ARLCAKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAE
IVDTVSALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAW
RKAVFISPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAI
TRAKVGILCIMSDRDLYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKVITGLHPTQA
PTHLSVDTKFKTEGLCVDVPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRH
VRAWIGFDVEGCHATREAVGTNLPLQLGFSTGVNLVAVPTGYVDTPNNTDFSRVSAKPP
PGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKNLSDRVVFVLWAHGFELTSMKYFVK
IGPERTCCLCDRRATCFSTASDTYACWHHSIGFDYVYNPFMIDVQQWGFTGNLQSNHDL
YCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWTIEYPIIGDELKINAACRKVQHMVVK
AALLADKFPVLHDIGNPKAIKCVPQADVEWKFYDAQPCSDKAYKIEELFYSYATHSDKF
TDGVCLFWNCNVDRYPANSIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAF
VNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRLYL
DAYNMMISAGFSLWVYKQFDTYNLWNTFTRLQSLENVAFNVVNKGHFDGQQGEVPVSII
NNTVYTKVDGVDVELFENKTTLPVNVAFELWAKRNIKPVPEVKILNNLGVDIAANTVIW
DYKRDAPAHISTIGVCSMTDIAKKPIETICAPLTVFFDGRVDGQVDLFRNARNGVLITE
GSVKGLQPSVGPKQASLNGVTLIGEAVKTQFNYYKKVDGVVQQLPETYFTQSRNLQEFK
PRSQMEIDFLELAMDEFIERYKLEGYAFEHIVYGDFSHSQLGGLHLLIGLAKRFKESPF
ELEDFIPMDSTVKNYFITDAQTGSSKCVCSVIDLLLDDFVEIIKSQDLSVVSKVVKVTI
DYTEISFMLWCKDGHVETFYPKLQSSQAWQPGVAMPNLYKMQRMLLEKCDLQNYGDSAT
LPKGIMMNVAKYTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGTAVLRQWLPTGTL
LVDSDLNDFVSDADSTLIGDCATVHTANKWDLIISDMYDPKTKNVTKENDSKEGFFTYI
CGFIQQKLALGGSVAIKITEHSWNADLYKLMGHFAWWTAFVTNVNASSSEAFLIGCNYL
GKPREQIDGYVMHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSLKEGQINDMI
LSLLSKGRLIIRENNRVVISSDVLVNN"
mat_peptide 257..796
/gene="ORF1ab"
/product="leader protein"
mat_peptide 797..2710
/gene="ORF1ab"
/product="nsp2"
mat_peptide 2711..8545
/gene="ORF1ab"
/product="nsp3"
mat_peptide 8546..10045
/gene="ORF1ab"
/product="nsp4"
mat_peptide 10046..10963
/gene="ORF1ab"
/product="3C-like proteinase"
mat_peptide 10964..11824
/gene="ORF1ab"
/product="nsp6"
mat_peptide 11825..12073
/gene="ORF1ab"
/product="nsp7"
mat_peptide 12074..12667
/gene="ORF1ab"
/product="nsp8"
mat_peptide 12668..13006
/gene="ORF1ab"
/product="nsp9"
mat_peptide 13007..13423
/gene="ORF1ab"
/product="nsp10"
mat_peptide join(13424..13450,13450..16218)
/gene="ORF1ab"
/product="RNA-dependent RNA polymerase"
mat_peptide 16219..18021
/gene="ORF1ab"
/product="helicase"
mat_peptide 18022..19602
/gene="ORF1ab"
/product="3'-to-5' exonuclease"
mat_peptide 19603..20640
/gene="ORF1ab"
/product="endoRNAse"
mat_peptide 20641..21534
/gene="ORF1ab"
/product="2'-O-ribose methyltransferase"
CDS 257..13465
/gene="ORF1ab"
/codon_start=1
/product="ORF1a polyprotein"
/protein_id="C_AAK66101.1"
/translation="MESLVPGFNEKTHVQLSLPVLQVRDVLVRGFGDSVEEVLSEARQH
LKDGTCGLVEVEKGVLPQLEQPYVFIKRSDARTAPHGHVMVELVAELEGIQYGRSGETL
GVLVPHVGEIPVAYRKVLLRKNGNKGAGGHRYGADLKSFDLGDELGTDPYEDFQENWNT
KHSSGVTRELMRELNGGAYTRYVDNNFCGPDGYPLECIKDLLARAGKDSCTLSEQLDFI
DTKRGVYCCREHEHEIAWYTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSII
KTIQPRVEKKKLDGFMGRIRSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKAT
CEFCGTENLTKEGATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRK
GGRTIAFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEK
VNINIVGDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAK
KGAWNIGEQKSILSPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQY
SLRLIDAMMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKF
KEGVEFLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSII
IGGAKLKALNLGETFVTHSKGLYRKCVKSREETGLLMPLKAPKEIIFLEGETLPTEVLT
EEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPNMMVTNNT
FTLKGGAPTKVTFGDDTVIEVQGYKSVNIIFELDERIDKVLNEKCSAYTVELGTEVNEF
ACVVADAVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDED
EEEGDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVG
QQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEE
AKKVKPTLVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSG
HNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCV
DTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQR
EQDDKKIKACVEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAP
YIVGDVVQEGVLTAVVIPTKKASGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAK
TVLKKCKSAFYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTI
QRKYKGIKIQEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEE
AARYMRSLKVPATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQS
TQLGIEFLKRGDKSVYYTSNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINL
HTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTT
DPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQD
AYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCG
QQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYE
LKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYT
TTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCD
NIKFADDLNQLTGYKKPASRELKVTFFPDLNGDVVAIDYRHYTPSFKKGAKLLHKPIVW
HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEV
VENPTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKP
NELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYM
PYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLIN
IIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIP
CSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAI
MQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCN
SSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTF
ISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVN
LDSLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGD
SAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQGF
VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSARHIN
AQVAKSHNITLIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIA
LKGGKIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTR
DIASTDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTT
NGDFLHFLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDT
NVLEGSVAYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAG
VCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLFTNMFTPLIQPIGALDISASIVAGGIVA
IVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFIVLCLTPVYSFLPGVYSVIYLYLT
FYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSF
STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAAC
CHLTKALNDFSNSGSDVLYQPPQISITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTL
NGLWLDDVVYCPRHVICTSEDMLNPNYEDLLIRKSNHNFLVQAGNVQLRVIGHSMQNCV
LKLKVDTANPKTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRHNFTIKGSFLNGSC
GSVGFNIDYDCVSFCYMHHMELPTGVHAGTDLEGNFYGPFVDRQTAQAAGTDTTITVNV
LAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLD
MCASLKELLQNGMNGRTILGSALLEDEFTPFDVVRQCSGVTFQSAVKRTIKGTHHWLLL
TILTSLLFLVQSTQWSLFFFLYENAFLPFAMGIIAMSAFAMMFVKHKHAFLCLFLLPSL
ATVAYFNMVYMPASWVMRIMTWLDMVDTSLKLKDCVMYASAVVLLILMTARTVYDDGAR
RVWTLMNVLTLVYKVYYGNALDQAISMWALIISVTSNYSGVVTTVMFLARGIVFMCVEY
CPIFFITGNTLQCIMLVYCFLGYFCTCYFGLFCLLNRYFRLTLGVYDYLVSTQEFKYMN
SQGLLPPKNSIDAFKLNIKLLGVGGKPCIKVATVQSKMSDVKCTSVVLLSVLQQLRVES
SSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLLSMQGAVDINKLCEEMLDNRATLQ
AIASEFSSLPSYAAFATAQEAYEQAVANGDSEVVLKKLKKSLNVAKSEFDRDAAMQRKL
EKMADQAMTQMYKQARSEDKRAKVTSAMQTMLFTMLRKLDNDALNNIINNARDGCVPLN
IIPLTTAAKLMVVIPDYNTYKNTCDGTTFTYASALWEIQQVVDADSKIVQLSEISMDNS
PNLAWPLIVTALRANSAVKLQNNELSPVALRQMSCAAGTTQTACTDDNALAYYNTIKGG
RFVLALLSDLQDLKWARFPKSDGTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNL
NRGMVLGSLAATVRLQAGNATEVPANSTVLSFCAFAVDAAKAYKDYLASGGQPITNCVK
MLCTHTGTGQAITVTPEANMDQESFGGASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTT
CANDPVGFTLKNTVCTVCGMWKGYGCSCDQLREPMLQSADAQSFLNGFAV"
mat_peptide 257..796
/gene="ORF1ab"
/product="leader protein"
mat_peptide 797..2710
/gene="ORF1ab"
/product="nsp2"
mat_peptide 2711..8545
/gene="ORF1ab"
/product="nsp3"
mat_peptide 8546..10045
/gene="ORF1ab"
/product="nsp4"
mat_peptide 10046..10963
/gene="ORF1ab"
/product="3C-like proteinase"
mat_peptide 10964..11824
/gene="ORF1ab"
/product="nsp6"
mat_peptide 11825..12073
/gene="ORF1ab"
/product="nsp7"
mat_peptide 12074..12667
/gene="ORF1ab"
/product="nsp8"
mat_peptide 12668..13006
/gene="ORF1ab"
/product="nsp9"
mat_peptide 13007..13423
/gene="ORF1ab"
/product="nsp10"
mat_peptide 13424..13462
/gene="ORF1ab"
/product="nsp11"
stem_loop 13458..13485
/gene="ORF1ab"
/note="Coronavirus frameshifting stimulation element
stem-loop 1"
stem_loop 13470..13524
/gene="ORF1ab"
/note="Coronavirus frameshifting stimulation element
stem-loop 2"
gene 21545..25342
/gene="S"
CDS 21545..25342
/gene="S"
/codon_start=1
/product="surface glycoprotein"
/protein_id="C_AAK66102.1"
/translation="MFVFLVLLPLVSSQCVNLITTTQSYTNSFTRGVYYPDKVFRSSVL
HLTQDLFLPFSSNVTWFHAISGTNGTKRFDNPVLPFNDGVYFASTEKSNIIRGWIFGTT
LDSKTQSLLIVNNATNVFIKVCEFQFCNDPFLDVYYKNNKSWMESESGVYSSANNCTFE
YVSQPFLMDLEGKQGNFKNLREFVFKNIDGYFKIYSKHTPIIGRDFPQGFSALEPLVDL
PIGINITRFQTLLALNRSYLTPGDSSSGWTAGAADYYVGYLQPRTFLLKYNENGTITDA
VDCALDPLSETKCTLKSFTVEKGIYQTSNFRVQPTESIVRFPNVTNLCPFHEVFNATTF
ASVYAWNRTRISNCVADYSVLYNFAPFFAFKCYGVSPTKLNDLCFTNVYADSFVIKGNE
VSQIAPGQTGNIADYNYKLPDDFTGCVIAWNSNKLDSKHSGNYDYWYRSLRKSKLKPFE
RDISTEIYQAGNKPCKGKGPNCYFPLQSYGFRPTYGVGHQPYRVVVLSFELLHAPATVC
GPKKSTNLVKNKCVNFNFNGLTGTGVLTKSNKKFLPFQQFGRDIVDTTDAVRDPQTLEI
LDITPCSFGGVSVITPGTNTSNQVAVLYQGVNCTEVSVAIHADQLTPTWRVYSTGSNVF
QTRAGCLIGAEYVNNSYECDIPIGAGICASYQTQTKSRRRARSVASQSIIAYTMSLGAE
NSVAYSNNSIAIPTNFTISVTTEILPVSMTKTSVDCTMYICGDSTECSNLLLQYGSFCT
QLKRALTGIAVEQDKNTQEVFAQVKQIYKTPPIKYFGGFNFSQILPDPSKPSKRSFIED
LLFNKVTLADAGFIKQYGDCLGDIAARDLICAQKFNGLTVLPPLLTDEMIAQYTSALLA
GTITSGWTFGAGAALQIPFAMQMAYRFNGIGVTQNVLYENQKLIANQFNSAIGKIQDSL
FSTASALGKLQDVVNHNAQALNTLVKQLSSKFGAISSVLNDILSRLDKVEAEVQIDRLI
TGRLQSLQTYVTQQLIRAAEIRASANLAATKMSECVLGQSKRVDFCGKGYHLMSFPQSA
PHGVVFLHVTYVPAQEKNFTTAPAICHDGKAHFPREGVFVSNGTHWFVTQRNFYEPQII
TTDNTFVSGNCDVVIGIVNNTVYDPLQLELDSFKEELDKYFKNHTSPDVDLGDISGINA
SVVNIQKEIDRLNEVAKNLNESLIDLQELGKYEQYIKWPWYIWLGFIAGLIAIVMVTIM
LCCMTSCCSCLKGCCSCGSCCKFDEDDSEPVLKGVKLHYT"
gene 25351..26178
/gene="ORF3a"
CDS 25351..26178
/gene="ORF3a"
/codon_start=1
/product="ORF3a protein"
/protein_id="C_AAK66103.1"
/translation="MDLFMRIFTIGTVTLKQGEIKDATPSDFVRATATIPIQASLPFGW
LIVGVALLAVFQSASKIITLKKRWQLALSKGVHFVCNLLLLFVTVYSHLLLVAAGLEAP
FLYLYALVYFLQSINFVRIIMRLWLCWKCRSKNPLLYDANYFLCWHTNCYDYCIPYNSV
TSSIVITSGDGTTSPISEHDYQIGGYTEKWESGVKDCVVLHSYFTSDYYQLYSTQLSTD
IGVEHVTFFIYNKIVDEPEEHVQIHTIDGSSGVVNPVMEPIYDEPTTTTSVPL"
gene 26203..26430
/gene="E"
CDS 26203..26430
/gene="E"
/codon_start=1
/product="envelope protein"
/protein_id="C_AAK66104.1"
/translation="MYSFVSEEIGTLIVNSVLLFLAFVVFLLVTLAILTALRLCAYCCN
IVNVSLVKPSFYVYSRVKNLNSSRVPDLLV"
gene 26481..27149
/gene="M"
CDS 26481..27149
/gene="M"
/codon_start=1
/product="membrane glycoprotein"
/protein_id="C_AAK66105.1"
/translation="MAHSNGTITVEELKKLLEEWNLVIGFLFLAWICLLQFAYANRNRF
LYIIKLIFLWLLWPVTLTCFVLAAVYRINWITGGIAIAMACLVGLMWLSYFIASFRLFV
RTRSMWSFNPETNILLNVPLHGTILTRPLLESELVIGAVILRGHLRIAGHHLGRCDIKD
LPKEITVATSRTLSYYKLGASQRVAGDSGFAAYSRYRIGNYKLNTDHSSSSDNIALLVQ
"
gene 27160..27345
/gene="ORF6"
CDS 27160..27345
/gene="ORF6"
/codon_start=1
/product="ORF6 protein"
/protein_id="C_AAK66106.1"
/translation="MFHLVDFQVTIAEILLIIMRTFKVSIWNLDYIINLIIKNLSKSLT
ENKYSQLDEEQPMEIL"
gene 27352..27717
/gene="ORF7a"
CDS 27352..27717
/gene="ORF7a"
/codon_start=1
/product="ORF7a protein"
/protein_id="C_AAK66107.1"
/translation="MKIILFLALITLATCELYHYQECVRGTTVLLKEPCSSGTYEGNSP
FHPLADNKFALTCFSTQFAFACPDGVKHVYQLRARSVSPKLFIRQEEVQELYSPIFLIV
AAIVFITLCFTLKRKTE"
gene 27714..27845
/gene="ORF7b"
CDS 27714..27845
/gene="ORF7b"
/codon_start=1
/product="ORF7b"
/protein_id="C_AAK66108.1"
/translation="MIELSLIDFYLCFLAFLLLLVLIMLIIFWFSLELQDHNETCHA"
gene 27852..28217
/gene="ORF8"
CDS 27852..28217
/gene="ORF8"
/codon_start=1
/product="ORF8 protein"
/protein_id="C_AAK66098.1"
/translation="MKFLVFLGIITTVAAFHQECSLQSCTQHQPYVVDDPCPIHFYSKW
YIRVGARKSAPLIELCVDEAGSKSPIQYIDIGNYTVSCLPFTINCQEPKLGSLVVRCSF
YEDFLEYHDVRVVLDFI"
gene 28232..29482
/gene="N"
CDS 28232..29482
/gene="N"
/codon_start=1
/product="nucleocapsid phosphoprotein"
/protein_id="C_AAK66099.1"
/translation="MSDNGPQNQRNALRITFGGPSDSTGSNQNGGARSKQRRPQGLPNN
TASWFTALTQHGKEDLKFPRGQGVPINTNSSPDDQIGYYRRATRRIRGGDGKMKDLSPR
WYFYYLGTGPEAGLPYGANKDGIIWVATEGALNTPKDHIGTRNPANNAAIVLQLPQGTT
LPKGFYAEGSRGGSQASSRSSSRSRNSSRNSTPGSSKRTSPARMAGNGGDAALALLLLD
RLNKLESKMSGKGQQQQGQTVTKKSAAEASKKPRQKRTATKAYNVTQAFGRRGPEQTQG
NFGDQELIRQGTDYKHWPQIAQFAPSASAFFGMSRIGMEVTPSGTWLTYTGAIKLDDKD
PNFKDQVILLNKHIDAYKTFPPTEPKKDKKKKADETQALPQRQKKQQTVTLLPAADLDD
FSKQLQQSMSRADSTQA"
gene 29507..29623
/gene="ORF10"
CDS 29507..29623
/gene="ORF10"
/codon_start=1
/product="ORF10 protein"
/protein_id="C_AAK66100.1"
/translation="MGYINVFAFPFTIYSLLLCRMNSRNYIAQVDVVNFNLT"
stem_loop 29558..29593
/gene="ORF10"
/note="Coronavirus 3' UTR pseudoknot stem-loop 1"
stem_loop 29578..29606
/gene="ORF10"
/note="Coronavirus 3' UTR pseudoknot stem-loop 2"
ORIGIN
1 ttataccttc ccaggtaaca aaccaaccaa cttttgatct cttgtagatc tgttctctaa
61 acgaacttta aaatctgtgt ggctgtcact cggctgcatg cttagtgcac tcacgcagta
121 taattaataa ctaattactg tcgttgacag gacacgagta actcgtctat cttctgcagg
181 ctgcttacgg tttcgtccgt gttgcagccg atcatcagca catctaggtt ttgtccgggt
241 gtgaccgaaa ggtaagatgg agagccttgt ccctggtttc aacgagaaaa cacacgtcca
301 actcagtttg cctgttttac aggttcgcga cgtgctcgta cgtggctttg gagactccgt
361 ggaggaggtc ttatcagagg cacgtcaaca tcttaaagat ggcacttgtg gcttagtaga
421 agttgaaaaa ggcgttttgc ctcaacttga acagccctat gtgttcatca aacgttcgga
481 tgctcgaact gcacctcatg gtcatgttat ggttgagctg gtagcagaac tcgaaggcat
541 tcagtacggt cgtagtggtg agacacttgg tgtccttgtc cctcatgtgg gcgaaatacc
601 agtggcttac cgcaaggttc ttcttcgtaa gaacggtaat aaaggagctg gtggccatag
661 gtacggcgcc gatctaaagt catttgactt aggcgacgag cttggcactg atccttatga
721 agattttcaa gaaaactgga acactaaaca tagcagtggt gttacccgtg aactcatgcg
781 tgagcttaac ggaggggcat acactcgcta tgtcgataac aacttctgtg gccctgatgg
841 ctaccctctt gagtgcatta aagaccttct agcacgtgct ggtaaagatt catgcacttt
901 gtccgaacaa ctggacttta ttgacactaa gaggggtgta tactgctgcc gtgaacatga
961 gcatgaaatt gcttggtaca cggaacgttc tgaaaagagc tatgaattgc agacaccttt
1021 tgaaattaaa ttggcaaaga aatttgacac cttcaatggg gaatgtccaa attttgtatt
1081 tcccttaaat tccataatca agactattca accaagggtt gaaaagaaaa agcttgatgg
1141 ctttatgggt agaattcgat ctgtctatcc agttgcgtca ccaaatgaat gcaaccaaat
1201 gtgcctttca actctcatga agtgtgatca ttgtggtgaa acttcatggc agacgggcga
1261 ttttgttaaa gccacttgcg aattttgtgg cactgagaat ttgactaaag aaggtgccac
1321 tacttgtggt tacttacccc aaaatgctgt tgttaaaatt tattgtccag catgtcacaa
1381 ttcagaagta ggacctgagc atagtcttgc cgaataccat aatgaatctg gcttgaaaac
1441 cattcttcgt aagggtggtc gcactattgc ctttggaggc tgtgtgttct cttatgttgg
1501 ttgccataac aagtgtgcct attgggttcc acgtgctagc gctaacatag gttgtaacca
1561 tacaggtgtt gttggagaag gttccgaagg tcttaatgac aaccttcttg aaatactcca
1621 aaaagagaaa gtcaacatca atattgttgg tgactttaaa cttaatgaag agatcgccat
1681 tattttggca tctttttctg cttccacaag tgcttttgtg gaaactgtga aaggtttgga
1741 ttataaagca ttcaaacaaa ttgttgaatc ctgtggtaat tttaaagtta caaaaggaaa
1801 agctaaaaaa ggtgcctgga atattggtga acagaaatca atactgagtc ctctttatgc
1861 atttgcatca gaggctgctc gtgttgtacg atcaattttc tcccgcactc ttgaaactgc
1921 tcaaaattct gtgcgtgttt tacagaaggc cgctataaca atactagatg gaatttcaca
1981 gtattcactg agactcattg atgctatgat gttcacatct gacttggcta ctaacaatct
2041 agttgtaatg gcctacatta caggtggtgt tgttcagttg acttcgcagt ggctaactaa
2101 catctttggc actgtttatg aaaaactcaa acccgtcctt gattggcttg aagagaagtt
2161 taaggaaggt gtagagtttc ttagagacgg ttgggaaatt gttaaattta tctcaacctg
2221 tgcttgtgaa attgtcggtg gacaaattgt cacctgtgca aaggaaatta aggagagtgt
2281 tcagacattc tttaagcttg taaataaatt tttggctttg tgtgctgact ctatcattat
2341 tggtggagct aaacttaaag ccttgaattt aggtgaaaca tttgtcacgc actcaaaggg
2401 attgtacaga aagtgtgtta aatccagaga agaaactggc ctactcatgc ctctaaaagc
2461 cccaaaagaa attatcttct tagagggaga aacacttccc acagaagtgt taacagagga