The nucleic acid data:
IRESite Id: 475 Version: 0
Originaly submitted by: Václav Vopálenský
Reviewed by: Martin Mokrejš
IRESite record type:
  promoter-less_plasmid_with_putative_IRES
The name of the plasmid:
(deltaCMV)BiCAQP4
Description of the plasmid (facultative for promoter-less plasmid records):
Almost the full length 5' UTR from human AQP4 mRNA (from nt -275 to nt -1 of the original sequence) and the first 7 nts (+1 to +7) from AQP4 ORF has been cloned between the beta galactosidase and chloramphenicol acetyl transferase reporter genes. This promoter-less variant of pBiCAQP4 (IRESite ID: 488) was prepared by removing the CMV promoter using NruI and HindIII restriction sites.
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 origin of IRES in the plasmid:
  nuclear
The donor organism of the IRES segment:
Homo sapiens HEK 293T/17 (ATCC CRL-11268)
The abbreviated name of the donor gene or virus from which this IRES was excised and inserted into the plasmid:
AQP4
The DNA sequence of the plasmid in (+) orientation annotated by its secondary structure:


GenBank formatted file with annotated plasmid sequence hyperlinked from vector image map:
(deltaCMV)BiCAQP4.jpg
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: Václav Vopálenský Reviewed by: Martin Mokrejš
The abbreviated name of this ORF/gene:
LacZ
The description of the protein encoded in this ORF:
beta galactosidase
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):
  810-3608
ORF
ORF position:   2
Version: 0
Originaly submitted by: Václav Vopálenský Reviewed by: Martin Mokrejš
The abbreviated name of this ORF/gene:
CAT
The description of the protein encoded in this ORF:
chloramphenicol acetyl transferase
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):
  4195-4854
Remarks:
The plasmid was used as the negative control for experiments in article A search for structurally similar
cellular internal ribosome entry sites (Baird et al., 2007; PMID:17591613).
Citations:
Baird S. D., Lewis S. M., Turcotte M., Holcik M. (2007) A search for structurally similar cellular internal ribosome entry sites. Nucleic. Acids. Res. 35(14):4664-4677
IRESs:
IRES:
Version: 2 Last change: 2008-07-15 08:48:18
Originaly submitted by: Václav Vopálenský Reviewed by: Martin Mokrejš
The IRES name:
  AQP4
The functional status of IRES:
  functional
The IRES absolute position (the range includes START and STOP codons or their equivalents):
  3905-4188
How IRES boundaries were determined:
guessed
5'-end of IRES relative to last base of the STOP codon of the upstream ORF:
  297
3'-end of IRES relative to last base of the STOP codon of the upstream ORF:
  580
5'-end of IRES relative to first base of the START codon of the downstream ORF:
  -290
3'-end of IRES relative to first base of the START codon of the downstream ORF:
  -7
The sequence of IRES region aligned to its secondary structure (if available):


Citations:
Baird S. D., Lewis S. M., Turcotte M., Holcik M. (2007) A search for structurally similar cellular internal ribosome entry sites. Nucleic. Acids. Res. 35(14):4664-4677
Last change to the database: 2015-04-16 16:45:23 GMT+1