The nucleic acid data:
IRESite Id: 620 Version: 0
Originaly submitted by: Martin Mokrejš Submission date: 2009-08-29 20:19:10
Reviewed by: Martin Mokrejš
IRESite record type:
  natural_transcript
The shape of the nucleic acid molecule translated:
  linear
The quality of the mRNA/+RNA sequence:
  our_best_guess
The abbreviated name of the virus/gene coding for this mRNA/+RNA molecule:
  BQCV
The genetic origin of this natural mRNA/+RNA:
  viral
The GenBankId GI:# number of exactly this mRNA/+RNA sequence:
8100530
The mRNA/+RNA description: 
Black queen cell virus nonstructural polyprotein (orf1) and structural polyprotein (orf2) genes, complete cds.
The mRNA/+RNA sequence represented in the +DNA notation:


Credibility of mRNA sequence:
  unknown
The organism containing this mRNA with IRES segment in its genome:
Black queen cell virus South African
A promoter reported in cDNA corresponding to IRES sequence:
  not tested
The total number of notable open-reading frames (ORFs):
  2
Notable Open-Reading Frames (ORFs; protein coding regions) in the mRNA/+RNA sequence:
ORF
ORF position:   1
Version: 0
Originaly submitted by: Martin Mokrejš Reviewed by: Martin Mokrejš
The abbreviated name of this ORF/gene:
ORF1
The description of the protein encoded in this ORF:
nonstructural polyprotein
The translational frameshift (ribosome slippage) involved:
  0
The ribosome read-through involved:
  no
The alternative forms of this protein occur by the alternative initiation of translation:
  not tested
The ORF absolute position (the base range includes START and STOP codons or their equivalents):
  658-5625
ORF
ORF position:   2
Version: 0
Originaly submitted by: Martin Mokrejš Reviewed by: Martin Mokrejš
The abbreviated name of this ORF/gene:
CP
The description of the protein encoded in this ORF:
capsid protein
The translational frameshift (ribosome slippage) involved:
  0
The ribosome read-through involved:
  no
The alternative forms of this protein occur by the alternative initiation of translation:
  not tested
The ORF absolute position (the base range includes START and STOP codons or their equivalents):
  5834-8395
Citations:
Leat N, Ball B, Govan V, Davison S (2000) Analysis of the complete genome sequence of black queen-cell virus, a picorna-like virus of honey bees. J. Gen. Virol. 8(81):2111-2119
IRESs:
IRES:
Version: 1 Last change: 2009-08-29 21:27:38
Originaly submitted by: Martin Mokrejš Reviewed by: Martin Mokrejš
The IRES name:
  BQCV_IGRpred
The IRES absolute position (the range includes START and STOP codons or their equivalents):
  5647-5836
Conclusion:
  putative_IRES
How IRES boundaries were determined:
guessed
5'-end of IRES relative to last base of the STOP codon of the upstream ORF:
  22
3'-end of IRES relative to last base of the STOP codon of the upstream ORF:
  211
5'-end of IRES relative to first base of the START codon of the downstream ORF:
  -187
3'-end of IRES relative to first base of the START codon of the downstream ORF:
  2
The sequence of IRES region aligned to its secondary structure (if available):


Remarks:
The IRES was NOT characterized experimentally. The presumed IRES region was taken over from Nakashima and
Uchiumi (2009) from Table 1.
Citations:
Nakashima N, Uchiumi T (2009) Functional analysis of structural motifs in dicistroviruses. Virus Res. 2(139):137-147
Last change to the database: 2015-04-16 16:45:23 GMT+1