The nucleic acid data:
IRESite Id: 204 Version: 2
Originaly submitted by: Martin Mokrejš
Reviewed by: Martin Mokrejš Last change: 2007-07-24 00:00:00
IRESite record type:
  natural_transcript
The shape of the nucleic acid molecule translated:
  linear
The quality of the mRNA/+RNA sequence:
  3UTR_possibly_incomplete
The abbreviated name of the virus/gene coding for this mRNA/+RNA molecule:
  Gtx
The genetic origin of this natural mRNA/+RNA:
  nuclear
The GenBankId GI:# number of exactly this mRNA/+RNA sequence:
193715
The mRNA/+RNA description: 
Mus musculus Gtx mRNA sequence.
The mRNA/+RNA sequence represented in the +DNA notation:


Credibility of mRNA sequence:
  end-to-end_sequence_reverse_engineered_and_should_match_experiment
The organism containing this mRNA with IRES segment in its genome:
Mus musculus
A promoter reported in cDNA corresponding to IRES sequence:
  yes
The total number of notable open-reading frames (ORFs):
  1
Summary of possible issues when IRES cDNA is experimentally transcribed in vivo:
Summary of experiments studying integrity of the in vivo transcripts in a particular host:
Integrity (uniformity) of mRNA tested using Northern-blot:
not_tested
Integrity (uniformity) of mRNA tested using RNase protection:
not_tested
Integrity (uniformity) of mRNA tested using 5'-RACE:
not_tested
Integrity (uniformity) of mRNA tested using primer extension :
not_tested
Integrity (uniformity) of mRNA tested using RT-PCR:
not_tested
Integrity (uniformity) of mRNA tested using real-time quantitative polymerase chain reaction (rtqPCR):
not_tested
Integrity (uniformity) of mRNA tested using RNAi:
not_tested
Integrity (uniformity) of mRNA tested using S1 nuclease mapping:
not_tested
Cryptic promoter presence was confirmed by expression from a promoter-less plasmid:
promoter_confirmed
Cryptic promoter presence was confirmed in an experimental setup involving inducible promoter:
not_tested
Integrity (uniformity) of mRNA molecules or possible promoter presence expressed in vivo was tested using another method, please specify in Remarks:
not_tested
The organism used:
Cricetulus griseus CHO-K1 (ATCC CCL-61)
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:
Gtx
The description of the protein encoded in this ORF:
Gtx 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):
  197-1030
Remarks:
Promoter activity was confirmed by Hartenbach and Fusseneger (2006). However, they claim IRES activity could
still be observed by direct transfection of uncapped in vitro transcribed RNA into Chinese hamster
ovary cells.
Citations:
Chappell S. A., Edelman G. M., Mauro V. P. (2000) A 9-nt segment of a cellular mRNA can function as an internal ribosome entry site (IRES) and when present in linked multiple copies greatly enhances IRES activity. Proc. Natl. Acad. Sci. U. S. A. 97(4):1536-1541
Hartenbach S., Fussenegger M. (2006) A novel synthetic mammalian promoter derived from an internal ribosome entry site. Biotechnol. Bioeng. 95(4):547-559
IRESs:
IRES:
Version: 2 Last change: 2007-01-11 00:00:00
Originaly submitted by: Martin Mokrejš Reviewed by: Martin Mokrejš
The IRES name:
  Gtx-133-141
The IRES absolute position (the range includes START and STOP codons or their equivalents):
  133-141
Conclusion:
  putative_IRES
How IRES boundaries were determined:
experimentally_determined
The sequence of IRES region aligned to its secondary structure (if available):


Remarks:
Synergistic effect was observed when multiple copies of this 9-nt segments were placed besides each other
spaced by beta-globin ORF sequence fragments.
Citations:
Chappell S. A., Edelman G. M., Mauro V. P. (2000) A 9-nt segment of a cellular mRNA can function as an internal ribosome entry site (IRES) and when present in linked multiple copies greatly enhances IRES activity. Proc. Natl. Acad. Sci. U. S. A. 97(4):1536-1541
IRES:
Version: 1 Last change: 2007-01-11 00:00:00
Originaly submitted by: Martin Mokrejš Reviewed by: Martin Mokrejš
The IRES name:
  Gtx-1-166
The IRES absolute position (the range includes START and STOP codons or their equivalents):
  1-166
Conclusion:
  putative_IRES
How IRES boundaries were determined:
experimentally_determined
The sequence of IRES region aligned to its secondary structure (if available):


Citations:
Chappell S. A., Edelman G. M., Mauro V. P. (2000) A 9-nt segment of a cellular mRNA can function as an internal ribosome entry site (IRES) and when present in linked multiple copies greatly enhances IRES activity. Proc. Natl. Acad. Sci. U. S. A. 97(4):1536-1541
IRES:
Version: 1 Last change: 2007-01-11 00:00:00
Originaly submitted by: Martin Mokrejš Reviewed by: Martin Mokrejš
The IRES name:
  Gtx-1-120
The IRES absolute position (the range includes START and STOP codons or their equivalents):
  1-120
Conclusion:
  putative_IRES
How IRES boundaries were determined:
experimentally_determined
The sequence of IRES region aligned to its secondary structure (if available):


Citations:
Chappell S. A., Edelman G. M., Mauro V. P. (2000) A 9-nt segment of a cellular mRNA can function as an internal ribosome entry site (IRES) and when present in linked multiple copies greatly enhances IRES activity. Proc. Natl. Acad. Sci. U. S. A. 97(4):1536-1541
IRES:
Version: 1 Last change: 2007-01-11 00:00:00
Originaly submitted by: Martin Mokrejš Reviewed by: Martin Mokrejš
The IRES name:
  Gtx-1-196
The IRES absolute position (the range includes START and STOP codons or their equivalents):
  1-196
Conclusion:
  putative_IRES
How IRES boundaries were determined:
experimentally_determined
The sequence of IRES region aligned to its secondary structure (if available):


Citations:
Chappell S. A., Edelman G. M., Mauro V. P. (2000) A 9-nt segment of a cellular mRNA can function as an internal ribosome entry site (IRES) and when present in linked multiple copies greatly enhances IRES activity. Proc. Natl. Acad. Sci. U. S. A. 97(4):1536-1541
Last change to the database: 2015-04-16 16:45:23 GMT+1