LOCUS       NC_003465               2979 bp    RNA     linear   VRL 13-AUG-2018
DEFINITION  Apple mosaic virus RNA 2 putative polymerase gene, complete cds.
ACCESSION   NC_003465
VERSION     NC_003465.1
DBLINK      BioProject: PRJNA485481
KEYWORDS    RefSeq.
SOURCE      Apple mosaic virus
  ORGANISM  Apple mosaic virus
            Viruses; Riboviria; Orthornavirae; Kitrinoviricota; Alsuviricetes;
            Martellivirales; Bromoviridae; Ilarvirus.
REFERENCE   1  (bases 1 to 2979)
  AUTHORS   Shiel,P.J. and Berger,P.H.
  TITLE     The complete nucleotide sequence of apple mosaic virus (ApMV) RNA 1
            and RNA 2: ApMV is more closely related to alfalfa mosaic virus
            than to other ilarviruses
  JOURNAL   J. Gen. Virol. 81 (Pt 1), 273-278 (2000)
   PUBMED   10640567
REFERENCE   2  (bases 1 to 2979)
  CONSRTM   NCBI Genome Project
  TITLE     Direct Submission
  JOURNAL   Submitted (27-MAR-2002) National Center for Biotechnology
            Information, NIH, Bethesda, MD 20894, USA
REFERENCE   3  (bases 1 to 2979)
  AUTHORS   Shiel,P.J. and Berger,P.H.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-AUG-1999) P.S.E.S., University of Idaho, Agricultural
            Sciences Building, Moscow, ID 83844-2339, USA
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence is identical to AF174585.
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..2979
                     /organism="Apple mosaic virus"
                     /mol_type="genomic RNA"
                     /db_xref="taxon:12319"
                     /segment="RNA 2"
                     /note="no ORF 2b present"
     5'UTR           1..79
                     /note="contains stem-loop structure, possible pseudoknot"
     gene            80..2707
                     /locus_tag="ApMVs2gp1"
                     /db_xref="GeneID:962663"
     CDS             80..2707
                     /locus_tag="ApMVs2gp1"
                     /note="99,866 Da predicted molecular weight"
                     /codon_start=1
                     /product="putative polymerase"
                     /protein_id="NP_604470.1"
                     /db_xref="GeneID:962663"
                     /translation="MDPLFSVFRNVDFSVKKMFTFDHEGDLVEPLLQLKHRTLTGVSK
                     TDEYAKLKQEYDECVTEEARQEALAVLNEYTRNHHDRVIGFTNLFIGMALVKFLGPKM
                     QRVFTQFIGTEMGPLLQTRWGGLFDLELESDYFIEVPNFDDYYVRDYEPYVEIDESVL
                     LPEEIEITSTEKSSEDVTSEETVEIDLTEPAMNSDLVTIRRSFEIWADGSEFGEELPP
                     IPSDFTVSAEGDDSSRDETEDSFDINALDDERPALENPGKIVKTPLPLIPDVGRFETN
                     QLMMVKEVVPHKFESILECHEKVLARNDWKSLAMYFPIGDVPTCGYTDLMAFPVKHTS
                     PEFIQMAIDEMLPGISDIDDSFFQELVETSDIALELDRATLDTSVFNDWTKSSGPKLN
                     GLFRTGNMSKRIPTQREAALAIKKRNLNVPDLQQVLFEDDEARKIANRFINTVIDPNK
                     LAQFPGYISEGEMGYFNKYLSGKNIPEDAFVDPCALVSMDKYRHMIKTQLKPVEDCSQ
                     IFERPLASPITYHDKGKVMSTSPILVMMCNRLLLCLTEKISIPTGNISLFSLDPFASE
                     MTKEFKEIDPSTFDKSQQRLHHLTHYHTPTALGAPADFIDMWFGSHEISHIRDGPCGV
                     GFSVNYQPRTGDACTYLANTIITLSALAYMYDLLDPNITFVIASGDDSLIGSRVPLDR
                     DDEFKFTTLFNFEAKFPHNQPFVCSKFLCLVPTTDGGKKVVAVPNALKLNIKLGVKDL
                     SPLTFDSWYESWLDLIWYFDNYLIVSTMKDYLSHRYLRKPTMFQEGAMLAYGSIFANK
                     EKCLRSVFGISSEELKRMVRKLQPEKKRAPINQITMEKPIGDNLIVRKGFVEKELVDR
                     KPRLGKKERKELEKRRLKT"
     misc_feature    1172..2287
                     /locus_tag="ApMVs2gp1"
                     /note="RNA-dependent RNA polymerase (RdRp) in the family
                     Bromoviridae of positive-sense single-stranded RNA
                     [(+)ssRNA] viruses; Region: Bromoviridae_RdRp; cd23252"
                     /db_xref="CDD:438102"
     misc_feature    1787..1831
                     /locus_tag="ApMVs2gp1"
                     /note="conserved polymerase motif A; other site"
                     /db_xref="CDD:438102"
     misc_feature    1973..2044
                     /locus_tag="ApMVs2gp1"
                     /note="conserved polymerase motif B; other site"
                     /db_xref="CDD:438102"
     misc_feature    2066..2110
                     /locus_tag="ApMVs2gp1"
                     /note="conserved polymerase motif C; other site"
                     /db_xref="CDD:438102"
     misc_feature    2084..2092
                     /locus_tag="ApMVs2gp1"
                     /note="Region: GDD motif"
     3'UTR           2708..2979
     misc_feature    2962..2965
                     /note="conserved sequence"
ORIGIN      
        1 ggttatttca cgtggttgtg aaattaatta attatctttt caactgtgat ctcacattta
       61 acgaaaagtt tatgtgatca tggatccctt gttctcagtt ttccggaatg ttgacttttc
      121 ggtgaagaaa atgttcacgt tcgatcatga aggagacttg gtggaaccat tgctccagtt
      181 gaagcaccga acccttactg gggtttcgaa aaccgatgag tacgcgaagt tgaagcagga
      241 atatgacgaa tgcgtgaccg aagaagcgcg acaagaagcg ctagcagttt tgaatgagta
      301 cactcgaaat caccatgacc gagttatcgg gtttactaac ctgtttattg ggatggcatt
      361 ggtgaaattc cttgggccga agatgcaaag agtgtttact caattcatag ggacagagat
      421 gggaccattg ctgcagacgc gatggggagg actgttcgat ttagagcttg aatccgatta
      481 tttcatcgaa gtcccgaatt ttgacgatta ctatgttcgt gattatgaac catacgtcga
      541 gatagacgag tctgtgctgc taccagaaga gatcgagata acttcgactg agaagagttc
      601 tgaggacgtg acgtccgagg agactgttga gatcgattta acagaaccag cgatgaatag
      661 tgatctggta actattcgca gatcgtttga gatctgggct gatggatctg agttcggtga
      721 ggaattgcct ccgattcctt cggactttac agtctccgcg gaaggagacg acagttctcg
      781 agatgagact gaggattcgt ttgatatcaa tgcgctcgat gatgagcgtc ctgccttaga
      841 gaatcctgga aagatcgtga agacaccatt gcctcttatc cccgatgtgg gacgattcga
      901 gacgaatcaa ttgatgatgg tcaaggaggt tgtgcctcac aagtttgaat caattctgga
      961 gtgtcatgaa aaggttttag cgagaaacga ttggaagtct cttgcgatgt attttccgat
     1021 aggagatgtt cccacttgtg ggtatacaga tcttatggca ttccctgtga agcacacaag
     1081 tcctgaattt atccaaatgg cgatcgatga gatgctacca ggaatttctg acattgatga
     1141 cagtttcttt caagaactgg tcgaaacttc agatattgcc ttggaattgg atagggcgac
     1201 tttggataca tccgtgttca acgattggac aaaatcttca ggtccgaagt tgaatggatt
     1261 attccgaact gggaacatgt cgaaaagaat tccgacccag cgagaagctg ctttggcgat
     1321 aaagaagagg aatttgaatg ttccagattt acagcaggtt ttattcgagg atgatgaggc
     1381 taggaagatt gcgaatcgtt tcattaacac agttattgat ccgaataaac tagcgcaatt
     1441 ccccggttac atttcagaag gagagatggg ttactttaat aagtatcttt ccgggaagaa
     1501 tataccagag gatgcttttg tggatccatg tgctttggtg tcgatggaca agtatcgaca
     1561 tatgatcaaa actcaattga aaccagttga ggattgttcg cagatatttg agagaccttt
     1621 ggcttcaccg attacatatc atgataaagg taaagtaatg tctacttcac ccattttggt
     1681 catgatgtgt aataggctac tgctgtgttt gactgagaag atatcaattc cgacaggaaa
     1741 tatctcatta ttctcattgg atccctttgc ttccgagatg acgaaagagt ttaaagagat
     1801 agacccctcg acattcgata agtcacagca gaggttgcat cacttgactc actatcacac
     1861 ccccacagct cttggcgcgc ctgccgactt cattgacatg tggtttggct cacacgagat
     1921 atcgcatatc agggacggac cctgcggtgt cgggtttagt gtgaattatc agcctcgaac
     1981 tggagacgct tgtacatacc tggcaaatac gatcattaca ttatccgctt tggcatatat
     2041 gtatgatctt ttagatccga atattacttt cgtcatcgct tcaggagacg atagtttaat
     2101 aggatcgaga gtaccattgg atagggacga cgagtttaaa ttcacaactt tgttcaactt
     2161 tgaggctaaa tttccacata atcagccctt tgtttgtagc aaatttttgt gtctagtccc
     2221 gacgactgat ggtggtaaga aagtggtggc tgttccgaat gcgttgaagt tgaacataaa
     2281 acttggtgtt aaggatttga gcccattaac tttcgattcc tggtatgaat cttggttgga
     2341 tttgatttgg tatttcgata attatctgat tgtttcgact atgaaagact atctgagtca
     2401 cagatatttg agaaaaccaa caatgtttca agaaggagcg atgttagctt acggttcgat
     2461 ttttgccaat aaagagaagt gtcttagatc tgtatttggc attagttcgg aggaactcaa
     2521 gcgaatggtg aggaaattgc aaccagagaa aaagagagct ccgataaatc aaatcaccat
     2581 ggagaaacca attggagaca accttatcgt gaggaaagga tttgtcgaga aggaattggt
     2641 ggatagaaaa cccagattgg gtaagaaaga gcggaaagag ctcgagaaac gtcgtttgaa
     2701 gacgtaaatt gaaagttaga aagagcggga ggctcgaagt tctaatttga ggagcgtgga
     2761 gctcgaagtt ccgagaggga actgaagcat atcgtgagga tatgcgttgt aggggagatg
     2821 gaccccaaga ctcgattaga gtcagaccgt accaccgcta gtggatttgc ggtcagtttt
     2881 ccgagcgtcg cctccttagg cgtgtcctag gaaaacaaca actcagtgtg gagttgattc
     2941 caatttctgt gaaagaaatt gatgccccga ttaggaggc
//