The nucleic acid data:
IRESite Id: 27 Version: 2
Originaly submitted by: Tomáš Mašek Submission date: 2005-09-20 00:00:00
Reviewed by: Martin Pospíšek
IRESite record type:
  plasmid_with_promoter_and_putative_IRES_translationally_characterized
The shape of the nucleic acid molecule translated:
  linear
The quality of the mRNA/+RNA sequence:
  both_UTRs_incomplete
The mRNA/+RNA description: 
5'-end truncated 5'-UTR (56-395 bp of original sequence) of c-myc mRNA transcribed from major P2 promotor,
where the first 55 bases was removed. Insert was cloned into pGL3R vector between renilla and firefly
luciferase.
The mRNA/+RNA sequence represented in the +DNA notation:


Credibility of mRNA sequence:
  unknown
The name of the plasmid:
pGL3Rutr56-395
The name of the promoter used to express this mRNA:
  SV40
The in vivo produced transcripts are heterogeneous (due to any of promoter?/splicing?/cleavage?/breakage?):
  not tested
The in vivo produced heterogeneous transcripts occur due to alternative splicing:
  not tested
A promoter reported in cDNA corresponding to IRES sequence:
  not tested
The abbreviated name of the donor gene or virus from which this IRES was excised and inserted into the plasmid:
c-myc
The origin of IRES in the plasmid:
  nuclear
The donor organism of the IRES segment:
Homo sapiens
The DNA sequence of the plasmid in (+) orientation annotated by its secondary structure:


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: 1
Originaly submitted by: Tomáš Mašek Reviewed by: Martin Pospíšek
The abbreviated name of this ORF/gene:
Rluc
The description of the protein encoded in this ORF:
renilla luciferase
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:
  no
The ORF absolute position (the base range includes START and STOP codons or their equivalents):
  42-977
ORF
ORF position:   2
Version: 1
Originaly submitted by: Tomáš Mašek Reviewed by: Martin Pospíšek
The abbreviated name of this ORF/gene:
FFluc
The description of the protein encoded in this ORF:
firefly luciferase
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:
  no
The ORF absolute position (the base range includes START and STOP codons or their equivalents):
  1361-3013
Citations:
Stoneley M., Paulin F. E., Le Quesne J. P., Chappell S. A., Willis A. E. (1998) C-Myc 5' untranslated region contains an internal ribosome entry segment. Oncogene. 16(3):423-428
IRESs:
IRES:
Version: 3
Originaly submitted by: Tomáš Mašek Reviewed by: Martin Pospíšek
The IRES name:
  c-myc_delta1-55
The functional status of IRES:
  defective
The IRES absolute position (the range includes START and STOP codons or their equivalents):
  1021-1360
How IRES boundaries were determined:
unknown
5'-end of IRES relative to last base of the STOP codon of the upstream ORF:
  44
3'-end of IRES relative to last base of the STOP codon of the upstream ORF:
  383
5'-end of IRES relative to first base of the START codon of the downstream ORF:
  -340
3'-end of IRES relative to first base of the START codon of the downstream ORF:
  -1
The sequence of IRES region aligned to its secondary structure (if available):


Remarks:
This bicistronic mRNA contains truncated 5'-UTR of c-myc P2 transcript, where first 55 bases of the wild-type
UTR were removed.
Citations:
Stoneley M., Paulin F. E., Le Quesne J. P., Chappell S. A., Willis A. E. (1998) C-Myc 5' untranslated region contains an internal ribosome entry segment. Oncogene. 16(3):423-428
The translation experiments:
Translation results:
IRESite Translation Id: 42
Version: 3 Last change: 2006-04-13 00:00:00
Originaly submitted by: Tomáš Mašek Reviewed by: Martin Pospíšek
The translation method used to study IRES function:
in vivo
The organism used for translation:
Homo sapiens HeLa (ATCC CCL-2)
The temperature (in degrees of Celsia):
37
The relative translation efficiency in % of this IRES:
  67.000
Name of IRES used as the positive control:
  c-myc
Name of the plasmid used as the positive control.
pGL3Rutr
IRESite Id of the plasmid used as positive control.
  25
The relative translation efficiency in % of the positive control:
  100.000
The size (length) of intercistronic region in the positive control:
450
The effect of 5'-cap analogs on translation:
not tested
Rapamycin affects translation:
not tested
Type of RNA subject to translation:
  endogenous_nuclear_RNA_Pol_II_transcript
Remarks:
As a positive control was used HeLa cell line transformed by vector pGL3Rutr, which contains full-length 5'UTR
of c-myc P2 transcript inserted between renilla and firefly luciferase.
Citations:
Stoneley M., Paulin F. E., Le Quesne J. P., Chappell S. A., Willis A. E. (1998) C-Myc 5' untranslated region contains an internal ribosome entry segment. Oncogene. 16(3):423-428
Last change to the database: 2015-04-16 16:45:23 GMT+1