LOCUS NC_001449 11444 bp ss-RNA linear VRL 13-AUG-2018
DEFINITION Venezuelan equine encephalitis virus, complete genome.
ACCESSION NC_001449
VERSION NC_001449.1
DBLINK BioProject: PRJNA485481
KEYWORDS RefSeq.
SOURCE Venezuelan equine encephalitis virus (VEEV)
ORGANISM Venezuelan equine encephalitis virus
Viruses; Riboviria; Orthornavirae; Kitrinoviricota; Alsuviricetes;
Martellivirales; Togaviridae; Alphavirus.
REFERENCE 1 (bases 1 to 11444)
AUTHORS Kinney,R.M., Tsuchiya,K.R., Sneider,J.M. and Trent,D.W.
TITLE Genetic evidence that epizootic Venezuelan equine encephalitis
(VEE) viruses may have evolved from enzootic VEE subtype I-D virus
JOURNAL Virology 191 (2), 569-580 (1992)
PUBMED 1448915
REFERENCE 2 (bases 1 to 11444)
CONSRTM NCBI Genome Project
TITLE Direct Submission
JOURNAL Submitted (01-AUG-2000) National Center for Biotechnology
Information, NIH, Bethesda, MD 20894, USA
REFERENCE 3 (bases 1 to 11444)
AUTHORS Kinney,R.
TITLE Direct Submission
JOURNAL Submitted (11-JUL-1993) Molecular Virology, Centers for Disease
Control and Prevention, PO Box 2087, Fort Collins, CO 80522, USA
COMMENT VALIDATED REFSEQ: This record has undergone validation or
preliminary review. The reference sequence was derived from L04653.
COMPLETENESS: full length.
FEATURES Location/Qualifiers
source 1..11444
/organism="Venezuelan equine encephalitis virus"
/mol_type="genomic RNA"
/db_xref="taxon:11036"
/tissue_lib="pUC18 and M13 of Kinney et al."
gene 1..11444
/locus_tag="VEEVgp1"
/db_xref="GeneID:2652925"
mRNA 1..11444
/locus_tag="VEEVgp1"
/function="genomic mRNA of VEE virus as determined from
strain P676"
/db_xref="GeneID:2652925"
gene 1..7526
/gene="NS"
/locus_tag="VEEVgp2"
/db_xref="GeneID:2652923"
5'UTR 1..44
/gene="NS"
/locus_tag="VEEVgp2"
CDS 45..7526
/gene="NS"
/locus_tag="VEEVgp2"
/note="possible incorporation of arginine, cysteine or
tryptophan at read through of UGA codon"
/codon_start=1
/transl_except=(pos:5682..5684,aa:Arg)
/product="non-structural polyprotein precursor P1234"
/protein_id="NP_040822.1"
/db_xref="GeneID:2652923"
/translation="MEKVHVDIEEDSPFLRALQRSFPQFEVEAKQVTDNDHANARAFS
HLASKLIETEVDPSDTILDIGSAPARRMYSKHKYHCICPMRCAEDPDRLYKYATKLKK
NCKEITDKELDKKMKELAAVMSDPDLETETMCLHDDESCRYEGQVAVYQDVYAVDGPT
SLYHQANKGVRVAYWIGFDTTPFMFKNLAGAYPSYSTNWADETVLTARNIGLCSSDVM
ERSRRGMSILRKKYLKPSNNVLFSVGSTIYHEKRDLLRSWHLPSVFHLRGKQNYTCRC
ETIVSCDGYVVKRIAISPGLYGKPSGYAATMHREGFLCCKVTDTLNGERVSFPVCTYV
PATLCDQMTGILATDVSADDAQKLLVGLNQRIVVNGRTQRNTNTMKNYLLPVVAQAFA
RWAKEYKEDQEDERPLGLRDRQLVMGCCWAFRRHKITSIYKRPDTQTIIKVNSDFHSF
VLPRIGSNTLEIGLRTRIRKMLEEHKEPSPLITAEDIQEAKCAADEAKEVREAEELRA
ALPPLAADFEEPTLEADVDLMLQEAGAGSVETPRGLIKVTSYAGEDKIGSYAVLSPQA
VLKSEKLSCIHPLAEQVIVITHSGRKGRYAVEPYHGKVVVPEGHAIPVQDFQALSESA
TIVYNEREFVNRYLHHIATHGGALNTDEEYYKTVKPSEHDGEYLYDIDRKQCVKKELV
TGLGLTGELVDPPFHEFAYESLRTRPAAPYQVPTIGVYGVPGSGKSGIIKSAVTKKDL
VVSAKKENCAEIIRDVKKMKGLDVNARTVDSVLLNGCKHPVETLYIDEAFACHAGTLR
ALIAIIRPKKAVLCGDPKQCGFFNMMCLKVHFNHEICTQVFHKSISRRCTKSVTSVVS
TLFYDKRMRTTNPKETKIVIDTTGSTKPKQDDLILTCFRGWVKQLQIDYKGNEIMTAA
ASQGLTRKGVYAVRYKVNENPLYAPTSEHVNVLLTRTEDRIVWKTLAGDPWIKILTAK
YPGNFTATIEEWQAEHDAIMRHILERPDPTDVFQNKANVCWAKALVPVLKTAGIDMTT
EQWNTVDYFETDKAHSAEIVLNQLCVRFFGLDLDSGLFSAPTVPLSIRNNHWDNSPSP
NMYGLNKEVVRQLSRRYPQLPRAVATGRVYDMNTGTLRNYDPRINLVPVNRRLPHALV
LHHNEHPQSDFSSFVSKLKGRTVLVVGEKLSVPGKKVDWLSDQPEATFRARLDLGIPG
DVPKYDIVFINVRTPYKYHHYQQCEDHAIKLSMLTKKACLHLNPGGTCVSIGYGYADR
ASESIIGAIARQFKFSRVCKPKSSHEETEVLFVFIGYDRKARTHNPYKLSSTLTNIYT
GSRLHEAGCAPSYHVVRGDIATATEGVIINAANSKGQPGGGVCGALYKKFPESFDLQP
IEVGKARLVKGAAKHIIHAVGPNFNKVSEVEGDKQLAEAYESIAKIVNDNNYKSVAIP
LLSTGIFSGNKDRLTQSLNHLLTALDTTDADVAIYCRDKKWEMTLKEAVARREAVEEI
CISDDSSVTEPDAELVRVHPKSSLAGRKGYSTSDGKTFSYLEGTKFHQAAKDIAEINA
MWPVATEANEQVCMYILGESMSSIRSKCPVEESEASTPPSTLPCLCIHAMTPERVQRL
KASRPEQITVCSSFPLPKYRITGVQKIQCSQPILFSPKVPAYIHPRKYLVETPPVEET
PESPAENQSTEGTPEQPALVNVDATRTRMPEPIIIEEEEEDSISLLSDGPTHQVLQVE
ADIHGSPSVSSSSWSIPHASDFDVDSLSILDTLDGASVTSGAVSAETNSYFARSMEFR
ARPVPAPRTVFRNPPHPAPRTRTPPLAHSRASSRTSLVSTPPGVNRVITREELEALTP
SRAPSRSASRTSLVSNPPGVNRVITREEFEAFVAQQQRRFDAGAYIFSSDTGQGHLQQ
KSVRQTVLSEVVLERTELEISYAPRLDQEKEELLRKKLQLNPTPANRSRYQSRRVENM
KAITARRILQGLGHYLKAEGKVECYRTLHPVPLYSSSVNRAFSSPKVAVEACNAMLKE
NFPTVASYCIIPEYDAYLDMVDGASCCLDTASFCPAKLRSFPKKHSYLEPTIRSAVPS
AIQNTLQNVLAAATKRNCNVTQMRELPVLDSAAFNVECFKKYACNNEYWETFKENPIR
LTEENVVNYITKLKGPKAAALFAKTHNLNMLQDIPMDRFVMDLKRDVKVTPGTKHTEE
RPKVQVIQAADPLATADLCGIHRELVRRLNAVLLPNIHTLFDMSAEDFDAIIAEHFQP
GDCVLETDIASFDKSEDDAMALTALMILEDLGVDAELLTLIEAAFGEISSIHLPTKTK
FKFGAMMKSGMFLTLFVNTVINIVIASRVLRERLTGSPCAAFIGDDNIVKGVKSDKLM
ADRCATWLNMEVKIIDAVVGEKAPYFCGGFILCDSVTGTACRVADPLKRLFKLGKPLA
VDDEHDDDRRRALHEESTRWNRVGILPELCKAVESRYETVGTSIIVMAMTTLASSVKS
FSYLRGAPITLYG"
mat_peptide 45..1649
/gene="NS"
/locus_tag="VEEVgp2"
/product="mRNA-capping enzyme nsP1"
/function="minus strand RNA synthesis; methyltransferase;
guanyltransferase"
/protein_id="NP_740696.1"
misc_feature 69..1184
/gene="NS"
/locus_tag="VEEVgp2"
/note="Viral methyltransferase; Region: Vmethyltransf;
pfam01660"
/db_xref="CDD:396298"
mat_peptide 1650..4031
/gene="NS"
/locus_tag="VEEVgp2"
/product="protease nsP2"
/function="RNA helicase; nonstructural proteinase;
necessary for subgenomic 26S mRNA synthesis"
/function="replication"
/protein_id="NP_740697.1"
misc_feature 2199..2894
/gene="NS"
/locus_tag="VEEVgp2"
/note="Viral (Superfamily 1) RNA helicase; Region:
Viral_helicase1; pfam01443"
/db_xref="CDD:366646"
misc_feature 2931..3533
/gene="NS"
/locus_tag="VEEVgp2"
/note="Peptidase family C9; Region: Peptidase_C9;
pfam01707"
/db_xref="CDD:279970"
mat_peptide 4032..5702
/gene="NS"
/locus_tag="VEEVgp2"
/product="non-structural protein nsp3"
/function="replication"
/protein_id="NP_740698.1"
misc_feature 4077..4460
/gene="NS"
/locus_tag="VEEVgp2"
/note="X-domain (or Mac1 domain) of viral non-structural
protein 3 and related macrodomains; Region:
Macro_X_Nsp3-like; cd21557"
/db_xref="CDD:438957"
misc_feature order(4095..4103,4113..4133,4350..4355,4359..4373,
4455..4457)
/gene="NS"
/locus_tag="VEEVgp2"
/note="ADP-ribose binding site [chemical binding]; other
site"
/db_xref="CDD:438957"
mat_peptide 5703..7520
/gene="NS"
/locus_tag="VEEVgp2"
/product="RNA-directed RNA polymerase nsP4"
/function="RNA polymerase"
/function="replication"
/protein_id="NP_740699.1"
misc_feature 6150..7523
/gene="NS"
/locus_tag="VEEVgp2"
/note="RNA-dependent RNA polymerase (RdRp) in the family
Togaviridae of positive-sense single-stranded RNA
[(+)ssRNA] viruses; Region: Togaviridae_RdRp; cd23250"
/db_xref="CDD:438100"
misc_feature 6795..6839
/gene="NS"
/locus_tag="VEEVgp2"
/note="conserved polymerase motif A; other site"
/db_xref="CDD:438100"
misc_feature 6981..7052
/gene="NS"
/locus_tag="VEEVgp2"
/note="conserved polymerase motif B; other site"
/db_xref="CDD:438100"
misc_feature 7074..7118
/gene="NS"
/locus_tag="VEEVgp2"
/note="conserved polymerase motif C; other site"
/db_xref="CDD:438100"
CDS 45..5684
/gene="NS"
/locus_tag="VEEVgp2"
/codon_start=1
/product="non-structural polyprotein precursor P123"
/protein_id="NP_040823.1"
/db_xref="GeneID:2652923"
/translation="MEKVHVDIEEDSPFLRALQRSFPQFEVEAKQVTDNDHANARAFS
HLASKLIETEVDPSDTILDIGSAPARRMYSKHKYHCICPMRCAEDPDRLYKYATKLKK
NCKEITDKELDKKMKELAAVMSDPDLETETMCLHDDESCRYEGQVAVYQDVYAVDGPT
SLYHQANKGVRVAYWIGFDTTPFMFKNLAGAYPSYSTNWADETVLTARNIGLCSSDVM
ERSRRGMSILRKKYLKPSNNVLFSVGSTIYHEKRDLLRSWHLPSVFHLRGKQNYTCRC
ETIVSCDGYVVKRIAISPGLYGKPSGYAATMHREGFLCCKVTDTLNGERVSFPVCTYV
PATLCDQMTGILATDVSADDAQKLLVGLNQRIVVNGRTQRNTNTMKNYLLPVVAQAFA
RWAKEYKEDQEDERPLGLRDRQLVMGCCWAFRRHKITSIYKRPDTQTIIKVNSDFHSF
VLPRIGSNTLEIGLRTRIRKMLEEHKEPSPLITAEDIQEAKCAADEAKEVREAEELRA
ALPPLAADFEEPTLEADVDLMLQEAGAGSVETPRGLIKVTSYAGEDKIGSYAVLSPQA
VLKSEKLSCIHPLAEQVIVITHSGRKGRYAVEPYHGKVVVPEGHAIPVQDFQALSESA
TIVYNEREFVNRYLHHIATHGGALNTDEEYYKTVKPSEHDGEYLYDIDRKQCVKKELV
TGLGLTGELVDPPFHEFAYESLRTRPAAPYQVPTIGVYGVPGSGKSGIIKSAVTKKDL
VVSAKKENCAEIIRDVKKMKGLDVNARTVDSVLLNGCKHPVETLYIDEAFACHAGTLR
ALIAIIRPKKAVLCGDPKQCGFFNMMCLKVHFNHEICTQVFHKSISRRCTKSVTSVVS
TLFYDKRMRTTNPKETKIVIDTTGSTKPKQDDLILTCFRGWVKQLQIDYKGNEIMTAA
ASQGLTRKGVYAVRYKVNENPLYAPTSEHVNVLLTRTEDRIVWKTLAGDPWIKILTAK
YPGNFTATIEEWQAEHDAIMRHILERPDPTDVFQNKANVCWAKALVPVLKTAGIDMTT
EQWNTVDYFETDKAHSAEIVLNQLCVRFFGLDLDSGLFSAPTVPLSIRNNHWDNSPSP
NMYGLNKEVVRQLSRRYPQLPRAVATGRVYDMNTGTLRNYDPRINLVPVNRRLPHALV
LHHNEHPQSDFSSFVSKLKGRTVLVVGEKLSVPGKKVDWLSDQPEATFRARLDLGIPG
DVPKYDIVFINVRTPYKYHHYQQCEDHAIKLSMLTKKACLHLNPGGTCVSIGYGYADR
ASESIIGAIARQFKFSRVCKPKSSHEETEVLFVFIGYDRKARTHNPYKLSSTLTNIYT
GSRLHEAGCAPSYHVVRGDIATATEGVIINAANSKGQPGGGVCGALYKKFPESFDLQP
IEVGKARLVKGAAKHIIHAVGPNFNKVSEVEGDKQLAEAYESIAKIVNDNNYKSVAIP
LLSTGIFSGNKDRLTQSLNHLLTALDTTDADVAIYCRDKKWEMTLKEAVARREAVEEI
CISDDSSVTEPDAELVRVHPKSSLAGRKGYSTSDGKTFSYLEGTKFHQAAKDIAEINA
MWPVATEANEQVCMYILGESMSSIRSKCPVEESEASTPPSTLPCLCIHAMTPERVQRL
KASRPEQITVCSSFPLPKYRITGVQKIQCSQPILFSPKVPAYIHPRKYLVETPPVEET
PESPAENQSTEGTPEQPALVNVDATRTRMPEPIIIEEEEEDSISLLSDGPTHQVLQVE
ADIHGSPSVSSSSWSIPHASDFDVDSLSILDTLDGASVTSGAVSAETNSYFARSMEFR
ARPVPAPRTVFRNPPHPAPRTRTPPLAHSRASSRTSLVSTPPGVNRVITREELEALTP
SRAPSRSASRTSLVSNPPGVNRVITREEFEAFVAQQQ"
misc_feature 69..1184
/gene="NS"
/locus_tag="VEEVgp2"
/note="Viral methyltransferase; Region: Vmethyltransf;
pfam01660"
/db_xref="CDD:396298"
misc_feature 2199..2894
/gene="NS"
/locus_tag="VEEVgp2"
/note="Viral (Superfamily 1) RNA helicase; Region:
Viral_helicase1; pfam01443"
/db_xref="CDD:366646"
misc_feature 2931..3533
/gene="NS"
/locus_tag="VEEVgp2"
/note="Peptidase family C9; Region: Peptidase_C9;
pfam01707"
/db_xref="CDD:279970"
misc_feature 4077..4460
/gene="NS"
/locus_tag="VEEVgp2"
/note="X-domain (or Mac1 domain) of viral non-structural
protein 3 and related macrodomains; Region:
Macro_X_Nsp3-like; cd21557"
/db_xref="CDD:438957"
misc_feature order(4095..4103,4113..4133,4350..4355,4359..4373,
4455..4457)
/gene="NS"
/locus_tag="VEEVgp2"
/note="ADP-ribose binding site [chemical binding]; other
site"
/db_xref="CDD:438957"
misc_feature 7524..7561
/locus_tag="VEEVgp1"
/note="putative"
/function="noncoding segment between nonstructural and
structural genes"
gene 7532..11444
/gene="26S mRNA"
/locus_tag="VEEVgp3"
/db_xref="GeneID:2652924"
mRNA 7532..11444
/gene="26S mRNA"
/locus_tag="VEEVgp3"
/product="26S mRNA region"
/note="The structural proteins of the virus are translated
as apolyprotein precursor molecule from an intracellular,
26SmRNA species that is identical to the 3'-one-third
portion of the viral genomic mRNA; putative"
/function="intracellular, subgenomic viral mRNA species"
/db_xref="GeneID:2652924"
CDS 7562..11329
/gene="26S mRNA"
/locus_tag="VEEVgp3"
/codon_start=1
/product="structural polyprotein precursor"
/protein_id="NP_040824.1"
/db_xref="GeneID:2652924"
/translation="MFPFQPMYPMQPMPYRNPFAAPRRPWFPRTDPFLAMQVQELTRS
MANLTFKQRRDAPPEGPPAKKPKREAPQKQKGGGQGKKKKNQGKKKAKTGPPNPKAQS
GNKKKPNKKPGKRQRMVMKLESDKTFPIMLEGKINGYACVVGGKLFRPMHVEGKIDND
VLAALKTKKASKYDLEYADVPQNMRADTFKYTHEKPQGYYSWHHGAVQYENGRFTVPK
GVGAKGDSGRPILDNQGRVVAIVLGGVNEGSRTALSVVMWNEKGVTVKYTPENCEQWS
LVTTMCLLANVTFPCAEPPICYDRKPAETLAMLSVNVDNPGYDELLEAAVKCPGRKRR
STEELFKEYKLTRPYMARCIRCAVGSCHSPIAIEAVKSDGHDGYVRLQTSSQYGLDSS
GNLKGRTMRYDMHGTIEEIPLHQVSLHTSRPCHIVDGHGYFLLARCPAGDSITMEFKK
GSVTHSCSVPYEVKFNPVGRELYTHPPEHGAEQACQVYAHDAQNRGAYVEMHLPGSEV
DSSLISLSGSSVTVTPPVGTSALVKCKCGGTKISETINKAKQFSQCTKKEQCRAYRLQ
NDKWVYNSDKLPKAAGATLKGKLHVPFLLADGKCTVPLAPEPMITFGFRSVSLKLHPK
NPTYLTTRQLADEPHYTHELISEPAVRNFTVTEKGWEFVWGNHPPKRFWAQETAPGNP
HGLPHEVITHYYHRYPMSTILGLSICAAIVTVSVAASTWLFCKSRVSCLTPYRLTPNA
RMPLCLAVLCCARTARAETTWESLDHLWNNNQQMFWIQLLIPLAALIVVTRLLKCVCC
VVPFLVVAGAAGAGAYEHATTMPSQAGISYNTIVNRAGYAPLPISITPTKIKLIPTVN
LEYVTCHYKTGMDSPAIKCCGSQECTPTNRPDEQCKVFTGVYPFMWGGAYCFCDTENT
QVSKAYVMKSDDCLADHAEAYKAHTASVQAFLNITVGEHSIVTTVYVNGETPVNFNGV
KLTAGPLSTAWTPFDRKIVQYAGEIYNYDFPEYGAGQPGAFGDIQSRTVSSSDLYANT
NLVLQRPKAGAIHVPYTQAPSGFEQWKKDKAPSLKFTAPFGCEIYTNPIRAENCAVGS
IPLAFDIPDALFTRVSETPTLSAAECTLNECVYSSDFGGIATVKYSASKSGKCAVHVP
SGTATLKEAAVELTEQGSATIHFSTANIHPEFRLQICTSYVTCKGDCHPPKDHIVTHP
QYHAQTFTAAVSKTAWTWLTSLLGGSAVIIIIGLVLATIVAMYVLTNQKHN"
mat_peptide 7562..8386
/gene="26S mRNA"
/locus_tag="VEEVgp3"
/product="core protein"
/function="encloses the genomic mRNA molecule"
/standard_name="capsid protein"
/note="putative"
/protein_id="NP_740700.1"
misc_feature 7919..8386
/gene="26S mRNA"
/locus_tag="VEEVgp3"
/note="Alphavirus core protein; Region: Peptidase_S3;
pfam00944"
/db_xref="CDD:366379"
mat_peptide 8387..8563
/gene="26S mRNA"
/locus_tag="VEEVgp3"
/product="E3 envelope protein"
/standard_name="E3 protein"
/note="putative"
/protein_id="NP_741965.1"
misc_feature 8402..8563
/gene="26S mRNA"
/locus_tag="VEEVgp3"
/note="Alphavirus E3 glycoprotein; Region:
Alpha_E3_glycop; pfam01563"
/db_xref="CDD:396236"
mat_peptide 8564..9832
/gene="26S mRNA"
/locus_tag="VEEVgp3"
/product="E2 envelope glycoprotein"
/function="cell attachment, elicits virus neutralizing
antibodies"
/standard_name="E2 envelope glycoprotein"
/note="putative"
/protein_id="NP_741966.1"
misc_feature 9818..11293
/gene="26S mRNA"
/locus_tag="VEEVgp3"
/note="Alphavirus E1 glycoprotein; Region:
Alpha_E1_glycop; pfam01589"
/db_xref="CDD:279870"
mat_peptide 9833..10000
/gene="26S mRNA"
/locus_tag="VEEVgp3"
/product="6K membrane protein"
/protein_id="NP_818994.1"
mat_peptide 10001..11326
/gene="26S mRNA"
/locus_tag="VEEVgp3"
/product="E1 envelope glycoprotein"
/function="viral fusion, immunogenecity"
/standard_name="E1 envelope glycoprotein"
/note="putative"
/protein_id="NP_741967.1"
gene 7562..10047
/locus_tag="VEEVgp4"
/db_xref="GeneID:13165423"
CDS join(7562..9970,9970..10047)
/locus_tag="VEEVgp4"
/note="Truncated verstion of structural polyprotein that
will be produced when frameshifting occurs at nt 9970;
Truncated version of structural polyprotein and transframe
fusion protein have been added by NCBI Staff with the kind
help of Dr. David Karlin (Department of Zoology,
University of Oxford, UK) and Dr. Andrew Firth (Department
of Pathology, University of Cambridge, UK)"
/codon_start=1
/product="truncated polyprotein"
/protein_id="YP_006491235.1"
/db_xref="GeneID:13165423"
/translation="MFPFQPMYPMQPMPYRNPFAAPRRPWFPRTDPFLAMQVQELTRS
MANLTFKQRRDAPPEGPPAKKPKREAPQKQKGGGQGKKKKNQGKKKAKTGPPNPKAQS
GNKKKPNKKPGKRQRMVMKLESDKTFPIMLEGKINGYACVVGGKLFRPMHVEGKIDND
VLAALKTKKASKYDLEYADVPQNMRADTFKYTHEKPQGYYSWHHGAVQYENGRFTVPK
GVGAKGDSGRPILDNQGRVVAIVLGGVNEGSRTALSVVMWNEKGVTVKYTPENCEQWS
LVTTMCLLANVTFPCAEPPICYDRKPAETLAMLSVNVDNPGYDELLEAAVKCPGRKRR
STEELFKEYKLTRPYMARCIRCAVGSCHSPIAIEAVKSDGHDGYVRLQTSSQYGLDSS
GNLKGRTMRYDMHGTIEEIPLHQVSLHTSRPCHIVDGHGYFLLARCPAGDSITMEFKK
GSVTHSCSVPYEVKFNPVGRELYTHPPEHGAEQACQVYAHDAQNRGAYVEMHLPGSEV
DSSLISLSGSSVTVTPPVGTSALVKCKCGGTKISETINKAKQFSQCTKKEQCRAYRLQ
NDKWVYNSDKLPKAAGATLKGKLHVPFLLADGKCTVPLAPEPMITFGFRSVSLKLHPK
NPTYLTTRQLADEPHYTHELISEPAVRNFTVTEKGWEFVWGNHPPKRFWAQETAPGNP
HGLPHEVITHYYHRYPMSTILGLSICAAIVTVSVAASTWLFCKSRVSCLTPYRLTPNA
RMPLCLAVLCCARTARAETTWESLDHLWNNNQQMFWIQLLIPLAALIVVTRLLKCVCC
VVPFLSRGRRRRRRRLRARDHDAEPSGNLV"
misc_feature 7919..8386
/locus_tag="VEEVgp4"
/note="Alphavirus core protein; Region: Peptidase_S3;
pfam00944"
/db_xref="CDD:366379"
misc_feature 8402..8563
/locus_tag="VEEVgp4"
/note="Alphavirus E3 glycoprotein; Region:
Alpha_E3_glycop; pfam01563"
/db_xref="CDD:396236"
misc_feature 9818..>9970
/locus_tag="VEEVgp4"
/note="Alphavirus E1 glycoprotein; Region:
Alpha_E1_glycop; pfam01589"
/db_xref="CDD:279870"
mat_peptide join(9833..9970,9970..10044)
/locus_tag="VEEVgp4"
/product="transframe fusion protein"
/note="Transframe fusion (TF) protein expressed via
programmed ribosomal frameshifting. TF protein presumably
plays a stabilizing role in the virion structure."
/protein_id="YP_006491236.1"
3'UTR 11327..11444
/gene="26S mRNA"
/locus_tag="VEEVgp3"
polyA_site 11444
/gene="26S mRNA"
/locus_tag="VEEVgp3"
ORIGIN
1 atgggcggcg caagagagaa gcccaaacca attacctacc caaaatggag aaagttcacg
61 ttgacatcga ggaagacagc ccattcctca gagctttaca acggagcttc ccgcagtttg
121 aggtagaagc caagcaggtc actgataatg accatgctaa tgccagagcg ttttcgcatc
181 tggcttcaaa actgatcgaa acggaggtgg acccatccga cacgatcctt gacattggaa
241 gtgcgcccgc ccgcagaatg tattctaagc ataagtatca ttgcatctgt ccgatgagat
301 gtgcggaaga tccggacaga ttgtacaagt atgcaactaa gctgaagaaa aattgcaagg
361 aaataactga caaggaattg gacaagaaaa tgaaggagct cgccgccgtc atgagcgacc
421 ctgacctgga aactgagact atgtgcctcc acgacgatga gtcatgtcgc tacgaggggc
481 aagtcgctgt ttaccaggat gtatacgcag ttgacggacc gacaagtctc tatcaccaag
541 ccaacaaggg agttagagtc gcctactgga taggctttga caccacccct tttatgttta
601 agaacttggc tggagcatat ccatcatact ctaccaactg ggccgacgaa accgtgttaa
661 cggctcgtaa cataggccta tgcagctccg acgtcatgga gcggtcacgt agagggatgt
721 ccattcttag gaagaagtat ttgaaaccat ccaataatgt cctattctct gttggctcga
781 ccatctacca cgagaagagg gacttactga ggagctggca cctgccgtct gtatttcact
841 tacgtggcaa gcaaaattac acatgtcggt gtgagactat agttagttgc gacgggtacg
901 tcgttaaaag aatagctatc agtccaggcc tgtatgggaa gccttcaggc tatgctgcta
961 cgatgcaccg cgagggattc ttgtgctgca aagtgacaga cacattgaac ggggagaggg
1021 tctcttttcc cgtgtgcacg tatgtgccag ctacattgtg tgaccaaatg actggcatac
1081 tggcaacaga tgtcagtgcg gacgacgcgc aaaaactgct ggttgggctc aaccagcgca
1141 tagtcgtcaa cggtcgcacc caaagaaaca ccaataccat gaagaattat cttttgcccg
1201 tagtggccca ggcatttgct aggtgggcaa aggaatataa ggaagatcaa gaagatgaga
1261 ggccactagg actacgagat agacagttag tcatggggtg ctgctgggct tttagaaggc
1321 acaagataac atctatttat aagcgcccag atacccaaac catcatcaaa gtgaacagcg
1381 atttccactc attcgtgctg cccaggatag gcagtaacac actggagatc gggctgagaa
1441 cgagaatcag gaaaatgcta gaagagcaca aggagccgtc acctctcatt actgccgagg
1501 acatacaaga ggctaagtgc gcagccgatg aggctaagga agtgcgtgaa gccgaggagc
1561 tgcgcgctgc tctaccacct ttggcagctg attttgagga gcccactctg gaagccgatg
1621 tcgacttgat gttacaagag gctggggccg gctcagtgga gacacctcgt ggcttgataa
1681 aggttaccag ctatgccggc gaggacaaga tcggctctta cgcagtgctt tctccacagg
1741 ctgtactcaa gagtgagaaa ctatcttgca ttcaccctct cgctgaacaa gtcatagtga
1801 taacacactc tggccgaaaa gggcgttatg ccgtggaacc ctaccatgga aaagtagtgg
1861 tgccagaggg acatgcaata cccgtccagg actttcaagc tctgagtgaa agtgccacca
1921 tcgtgtacaa cgaacgagag ttcgtaaaca ggtacctgca ccatattgcc acacatggag
1981 gagcgctgaa cacagatgaa gaatattaca aaactgtcaa gcccagcgag cacgacggcg
2041 aatacctgta cgacatcgac aggaaacaat gcgtcaagaa agaattagtc actgggctag
2101 ggcttacagg cgagctggtg gatcctccct tccatgaatt tgcctacgag agtctgagaa
2161 cacgtccggc cgctccttac caagtaccaa ccataggggt gtatggcgtg ccggggtcag
2221 gcaagtctgg catcattaaa agcgcagtca ccaaaaaaga tctggtggtg agcgccaaga
2281 aagaaaactg cgcagaaata ataagggacg tcaagaaaat gaaagggctg gacgtcaatg
2341 ccagaactgt ggactcagtg ctcttgaatg gatgcaaaca ccccgtagag accctgtata
2401 ttgacgaagc ttttgcttgt catgcaggca ctctcagagc gctcatagcc atcataagac
2461 ctaaaaaggc agtgctctgc ggggatccaa aacagtgtgg ctttttcaat atgatgtgcc
2521 tgaaagtgca ttttaaccac gagatttgca cgcaggtctt ccacaaaagc atctctcgcc
2581 gttgcactaa atccgtgact tcggtcgtct caaccttgtt ttacgacaaa aggatgagaa
2641 cgacgaaccc gaaagagact aagattgtga ttgacactac tggcagtacc aaaccgaagc
2701 aggacgatct cattctcact tgtttcagag ggtgggtgaa gcagttgcaa atagattaca
2761 aaggcaacga aataatgacg gcagctgcct ctcaagggct gacccgtaaa ggcgtgtatg
2821 ccgttcggta caaggtgaat gaaaatcccc tgtacgcacc cacctcagaa catgtgaacg
2881 tcctactgac ccgcacggag gaccgtatcg tgtggaaaac actagccggt gatccatgga
2941 taaaaatact gacggccaag tatcctggga acttcactgc cacgatagag gaatggcaag
3001 cagagcatga tgccatcatg aggcacatct tggagagacc ggaccctacc gacgttttcc
3061 aaaataaggc gaacgtgtgt tgggccaagg ctttggtgcc ggtactgaag actgcaggca
3121 tagacatgac cactgaacaa tggaacactg tggattactt cgaaacggac aaagctcact
3181 cagcagagat agtattgaac caactatgcg tgaggttctt tggactcgac ctggactccg
3241 gtctattttc tgcacccact gttccgttat ccattaggaa taatcactgg gataattccc
3301 cgtcgcctaa catgtacggg ttgaataaag aagtggtccg ccagctctcc cgcaggtacc
3361 cacaactgcc tcgagcagtt gccaccggaa gagtctatga catgaacact ggcacgctgc
3421 gcaattatga tccgcgcata aatctagtac ctgtgaacag aagactgcct catgctttag
3481 tcctccacca taatgaacac ccacagagtg acttttcttc attcgtcagc aaactgaagg
3541 gcagaactgt cttggtggtc ggggagaagt tgtccgtccc aggcaaaaag gtcgactggt
3601 tgtcagacca gcctgaggct acctttagag ctcggctgga tttaggtatc ccaggtgacg
3661 tgcccaaata cgacattgta tttattaacg tgaggactcc atataaatac catcattatc
3721 agcagtgtga agaccacgcc attaagctta gtatgttgac caagaaagct tgtctgcatt
3781 tgaatcccgg cggaacctgc gtcagcatag gttatggtta cgctgacagg gccagcgaga
3841 gcatcattgg tgctatagcg cggcagttca agttctcccg ggtatgcaaa ccgaaatcct
3901 cacatgaaga gacagaagta ctgtttgtat tcattgggta cgatcgcaag gcccgtacgc
3961 acaatcctta caagctttca tctaccttga ccaacatcta tacaggttcc agactccacg
4021 aagccggatg cgcaccctca tatcatgtgg tgcgagggga tattgccacg gccaccgaag
4081 gagtgatcat aaatgctgct aacagcaaag gacaacctgg cggaggggtg tgcggagcgc
4141 tgtataagaa attcccggaa agcttcgatt tacagccgat cgaagtagga aaagcgcgac
4201 tggtcaaagg tgcagctaaa catatcattc atgccgtagg accaaacttc aacaaagttt
4261 cggaagttga aggggacaaa cagttggcag aggcttatga gtccatcgct aaaattgtca
4321 acgataacaa ttacaagtca gtagcgattc cactgttgtc caccggcatc ttttccggga
4381 acaaagatcg actaacccaa tcattgaacc atttgctgac agctttagac accactgatg
4441 cagatgtagc catatactgc agggacaaga aatgggaaat gactctcaag gaagcagtgg
4501 ctaggagaga agcagtggag gagatatgca tatcagacga ctcttcggtg acagaaccgg
4561 atgcagagct ggtgagggta catccgaaga gttctttggc tggaaggaag ggctacagca
4621 caagtgatgg caagactttc tcatatttgg aagggaccaa atttcaccag gcggccaagg
4681 atatagcaga aattaatgcc atgtggccag ttgcaacgga ggccaatgag caagtatgca
4741 tgtatatcct cggtgaaagc atgagcagca ttaggtcgaa atgccccgtc gaggagtcgg
4801 aagcctccac accacctagc acgctgcctt gcttgtgcat ccatgctatg actccagaaa
4861 gagtacaacg cctaaaagcc tcacgtccag aacaaattac tgtgtgctca tcctttccat
4921 tgccgaagta tagaatcact ggtgtgcaga agatccagtg ctcccagcct atactgttct
4981 caccgaaggt gcctgcgtac attcatccac ggaagtacct cgtggaaaca ccaccggtag
5041 aagagactcc ggagtcgccg gcagagaacc aatccacaga ggggacacct gaacaaccag
5101 cacttgtaaa cgtggatgca accaggacta gaatgcctga accgatcatc attgaagagg
5161 aagaagagga tagtataagt ttgctgtcag acggcccgac ccaccaggtg ctgcaagtcg
5221 aggcagacat tcacgggtcg ccttctgtat ccagctcatc ctggtccatt cctcatgcat
5281 ccgactttga tgtggacagc ttatccatcc ttgacaccct ggatggagct agcgtgacca
5341 gcggggcagt gtcagccgag actaactcct acttcgcaag gagcatggag tttcgggcgc
5401 gaccggtgcc tgcgcctcga accgtattca ggaaccctcc acatcccgca ccgcgcacaa
5461 gaacaccgcc acttgcacac agcagggcca gctcgagaac tagcctagtt tccaccccgc
5521 caggcgtgaa tagggtgatt actagagagg agctcgaggc gcttaccccg tcccgcgctc
5581 ctagcaggtc ggcctcaaga actagcctgg tctctaaccc gccaggcgta aatagggtga
5641 ttacaagaga ggagtttgag gcgttcgtag cacaacaaca atgacggttt gacgcgggtg
5701 catacatctt ttcctccgat accggtcaag ggcatttaca acaaaaatca gtaaggcaaa
5761 cggtgttatc cgaagtggtg ttggagagga ccgaattgga gatttcgtat gccccgcgcc
5821 tcgaccagga aaaagaagaa ctactacgca agaaattaca gctgaatccc acacctgcta
5881 acagaagcag ataccagtcc aggagggtgg agaatatgaa agccataaca gctagacgta
5941 ttctgcaagg cctagggcat tatttgaagg cagaaggaaa agtggagtgc tatcgaaccc
6001 tgcatcctgt tcctttgtat tcatctagtg tgaatcgtgc tttttcaagc cccaaggtcg
6061 cagtggaagc ctgcaatgcc atgctgaaag aaaattttcc gactgtagct tcctactgta
6121 ttattccaga gtacgatgcc tatctggaca tggttgacgg cgcttcttgt tgcttagaca
6181 ctgccagttt ttgccctgcg aagctgcgca gctttccaaa gaaacactcc tatttggaac
6241 ccacaatacg gtcggcagtg ccatcagcga ttcagaacac gctccagaac gtcctggcag
6301 ctgccacaaa aagaaattgc aacgtcacgc aaatgagaga attgcccgta ttggattcgg
6361 ctgcctttaa tgtggaatgc ttcaagaaat atgcgtgcaa taatgaatat tgggaaacgt
6421 ttaaagaaaa ccccatcagg cttactgaag aaaatgtggt aaattacatt actaaattaa
6481 aaggaccaaa agctgctgct ctttttgcga agacacataa tttgaatatg ttacaggaca
6541 taccaatgga caggtttgta atggacttaa agagggacgt gaaagtgact ccaggaacaa
6601 aacatactga agaacggccc aaggtacagg tgattcaggc tgccgatcca ctagcgacag
6661 cggatctgtg cggaatccac cgggagttgg ttaggagatt aaatgctgtc ctgcttccga
6721 acatccatac actgtttgac atgtcggctg aagactttga cgctattatt gccgagcatt
6781 tccagcctgg ggactgtgta ctggaaactg acattgcgtc gtttgataaa agtgaggacg
6841 acgccatggc tctgaccgcg ttaatgattc tggaagacct aggagtggac gcagagctgt
6901 tgacgctgat tgaggcggct ttcggcgaaa tatcatcaat acatttgccc accaaaacta
6961 aatttaaatt cggagccatg atgaaatccg gaatgttcct cacactgttt gtgaacacag
7021 tcatcaacat cgtaatcgca agcagagtgt taagagagcg gctaaccgga tcaccatgtg
7081 cagcattcat tggagatgac aatatcgtga aaggagtcaa atctgacaaa ttaatggcag
7141 acaggtgcgc cacttggttg aacatggaag tcaagatcat agacgccgtg gtgggcgaga
7201 aagcgcccta tttttgtgga gggtttatct tgtgtgactc cgtgaccggc acagcgtgcc
7261 gtgtggcaga ccccctaaaa aggctgttta agcttggcaa acccctggca gtagacgatg
7321 aacatgacga tgacaggaga agggcattac acgaagagtc aacacgctgg aatcgagtgg
7381 gaattcttcc agagctgtgt aaggcagtag aatcaaggta tgaaaccgta ggaacttcca
7441 tcatagttat ggccatgact actctagcta gcagtgttaa atcattcagc tacctgagag
7501 gggcccctat aactctctac ggctaacctg aatggactac gacatagtct agtccgccaa
7561 gatgttcccg ttccaaccaa tgtatccgat gcagccaatg ccctatcgta acccgttcgc
7621 ggccccgcgc aggccctggt tccccagaac cgaccctttt ctggcgatgc aggtgcagga
7681 attaacccgc tcgatggcta acctgacgtt caagcaacgc cgggacgcgc cacctgaggg
7741 gccacctgct aagaaaccta agagggaggc cccgcaaaag caaaaagggg gaggccaagg
7801 gaagaagaag aagaaccagg ggaagaagaa ggccaagacg gggccgccta atccgaaggc
7861 acagagtgga aacaagaaga agcccaacaa gaaaccaggc aagagacagc gcatggtcat
7921 gaaattggaa tctgacaaga cattcccaat tatgctggaa gggaagatta acggctacgc
7981 ttgcgtggtc ggagggaagt tattcaggcc gatgcacgtg gaaggcaaga tcgacaacga
8041 cgttctggcc gcacttaaga cgaagaaagc atccaaatat gatcttgagt atgcagatgt
8101 gccacagaac atgcgggccg atacattcaa gtacacccat gagaagcccc aaggctatta
8161 cagctggcat catggagcag tccaatatga aaatgggcgt ttcacggtgc caaaaggagt
8221 tggggccaag ggagacagcg gaagacccat tctggataat cagggacggg tggtcgctat
8281 tgtgctggga ggtgtgaatg aaggatctag gacagccctt tcagtcgtca tgtggaacga
8341 gaagggagta actgtgaagt atactccgga gaactgcgag caatggtcac tagtgaccac
8401 tatgtgcctg ctcgccaatg tgacgttccc atgtgccgaa ccaccaattt gctacgacag
8461 aaaaccagca gagactttgg ccatgctcag cgttaacgtt gacaacccgg gctacgatga
8521 gctgctggaa gcagctgtta agtgccccgg aagaaaaagg agatctaccg aggagctgtt
8581 taaggagtat aagctaacgc gcccttacat ggccagatgc atcagatgtg ccgttgggag
8641 ctgccatagt ccaatagcaa ttgaggcagt gaagagcgac gggcacgacg gctatgttag
8701 acttcagact tcctcgcagt atggcctgga ttcctctggc aacttaaagg gaaggactat
8761 gcggtatgat atgcacggga ccattgaaga gataccacta catcaagtgt cactccacac
8821 atctcgcccg tgtcacattg tggatgggca tggttatttt ctgcttgcta ggtgcccggc
8881 aggggactcc atcaccatgg aatttaagaa aggttcagtc acacactcct gctcagtgcc
8941 gtatgaagtg aaatttaatc ctgtaggcag agaactctac actcatccac cagaacacgg
9001 agcagagcaa gcgtgccaag tctacgcgca cgatgcacag aacagaggag cttatgtcga
9061 gatgcacctc ccgggctcag aagtggacag cagtttgatt tccttgagcg gcagttcagt
9121 caccgtgaca cctcctgtcg ggactagcgc cttggtgaaa tgcaagtgcg gcggcacaaa
9181 gatctccgaa accatcaaca aggcaaaaca gttcagccag tgcacaaaga aggagcagtg
9241 cagagcatat cgactgcaga atgacaagtg ggtgtataat tctgacaaac tgcccaaagc
9301 agcgggagcc accctaaaag gaaaactaca cgtcccgttc ttgctggcag acggcaaatg
9361 caccgtgcct ctagcaccgg aacctatgat aaccttcggt ttccgatcag tgtcactgaa
9421 actgcaccct aagaatccca catatctgac cactcgccaa cttgctgatg agcctcatta
9481 cacgcacgag ctcatatctg aaccagctgt taggaatttt accgtcactg aaaaggggtg
9541 ggagtttgta tggggaaacc atccgccgaa aaggttttgg gcacaggaaa cagcacccgg
9601 aaatccacat gggctgccac atgaggtgat aactcattat taccacagat accctatgtc
9661 caccatcctg ggtttgtcaa tttgcgccgc cattgtaacc gtttccgttg cagcgtccac
9721 ctggctgttt tgcaaatcca gagtttcgtg cctaactcct taccggctaa cacctaacgc
9781 caggatgccg ctttgcctgg ccgtgctttg ctgcgcccgc actgcccggg ccgagaccac
9841 ctgggagtcc ttggatcacc tatggaacaa taaccaacag atgttctgga ttcaattgct
9901 gatccctctg gccgccttga ttgtagtgac tcgcctgctc aagtgcgtgt gctgtgtagt
9961 gcctttttta gtcgtggccg gcgccgcagg cgccggcgcc tacgagcacg cgaccacgat
10021 gccgagccaa gcgggaatct cgtataacac catagtcaac agagcaggct acgcgccact
10081 ccctatcagc ataacaccaa caaagatcaa gctgataccc acagtgaact tggagtacgt
10141 cacctgccac tacaaaacag gaatggattc accagccatc aaatgctgcg gatctcagga
10201 atgtactcca actaacaggc ctgatgaaca gtgcaaagtc ttcacagggg tttacccgtt
10261 catgtgggga ggtgcatatt gcttttgcga cactgagaat actcaggtca gcaaggccta
10321 cgtaatgaaa tctgacgact gccttgcgga tcatgctgaa gcatacaaag cgcacacagc
10381 ctcagtgcag gcgttcctca acatcacagt gggggaacac tctattgtga ccaccgtgta
10441 tgtgaatgga gaaactcctg tgaacttcaa tggggtcaaa ctaactgcag gtccactttc
10501 cacagcttgg acaccctttg acagaaaaat cgtgcagtat gccggggaga tctataatta
10561 cgattttcct gagtatgggg caggacaacc aggagcattt ggagacatac aatccagaac
10621 agtctcaagc tcagatctgt atgccaatac caacctagtg ctgcagagac ccaaagcagg
10681 agcgatccat gtgccataca ctcaggcacc atcgggtttt gagcaatgga agaaagataa
10741 agctccgtca ttgaaattca ccgccccttt cggatgcgaa atatatacaa accccattcg
10801 cgccgaaaat tgtgctgtag ggtcaattcc attagccttt gacattcccg acgccttgtt
10861 caccagggtg tcagaaacac cgacactttc agcggccgaa tgcactctta acgagtgcgt
10921 gtattcatcc gactttggcg ggatcgccac ggtcaagtat tcggccagca agtcaggcaa
10981 gtgcgcagtc catgtgccat cagggactgc taccctaaaa gaagcagcag tcgagctaac
11041 cgagcaaggg tcggcgacca ttcatttctc gaccgcaaat atccacccgg agttcaggct
11101 ccaaatatgc acatcatatg tcacgtgcaa aggtgattgt caccccccga aagaccacat
11161 tgtgacacac ccccagtatc acgcccaaac atttacagcc gcggtgtcaa aaaccgcgtg
11221 gacgtggtta acatccctgc tgggaggatc ggccgtaatt attataattg gcttagtgct
11281 ggctactatt gtggccatgt acgtgctgac caaccagaaa cataattgaa catagcagca
11341 attggcaagc tgcttatata gaacttgcgg cgattggcat gccgctttaa aattttattt
11401 tattttcttt tcttttccga atcggatttt gtttttaata tttc
//
