The nucleic acid data:
IRESite Id: 118 Version: 7
Originaly submitted by: Václav Vopálenský
Reviewed by: Martin Mokrejš Last change: 2009-09-01 20:29:00
IRESite record type:
  natural_transcript
The shape of the nucleic acid molecule translated:
  linear
The quality of the mRNA/+RNA sequence:
  hopefully_full-length_mRNA
The abbreviated name of the virus/gene coding for this mRNA/+RNA molecule:
  HSPA1A
The genetic origin of this natural mRNA/+RNA:
  nuclear
The GenBankId GI:# number of exactly this mRNA/+RNA sequence:
194248071
Synonyms of the gene name:
Synonym: HSP72
Synonym: HSPA1
Synonym: HSPA1B
Synonym: HSP70-1
The mRNA/+RNA description: 
Homo sapiens heat shock 70kDa protein 1A (HSPA1A), mRNA. Poly(A)-tail was dropped.
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:
Homo sapiens
A promoter reported in cDNA corresponding to IRES sequence:
  no
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:
homogeneous_population_of_molecules_confirmed
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:
no_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:
homogeneous_population_of_molecules_confirmed
The organism used:
Homo sapiens HEK 293T/17 (ATCC CRL-11268)
Notable Open-Reading Frames (ORFs; protein coding regions) in the mRNA/+RNA sequence:
ORF
ORF position:   1
Version: 2 Last change: 2009-09-01 20:29:00
Originaly submitted by: Václav Vopálenský Reviewed by: Martin Mokrejš
The abbreviated name of this ORF/gene:
HSPA1A
The description of the protein encoded in this ORF:
heat shock 70kDa protein 1A
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):
  244-2169
Remarks:
The sequence used for this IRESite (NM_005345.5) is longer by 27bp at the very 5'-end than the 5'-UTR shown in
the article in Figure 1.

Slightly conflicting annotation of the chromosomal region in DQ451402 shows that the 5'-UTR of our entry
(taken over from RefSeq) might be too long. Seemingly complete cDNAs in CR624878 and DA486842.


The promoter-less plasmid was created by destroying the SV40 promoter. Activity of both Renilla and firefly
luciferases was monitored (primary data were not published) and no promoter activity was concluded. RNase
protection was used to confirm that only bicistronic transcripts were produced (Fig. 3).
Citations:
Rubtsova M. P., Sizova D. V., Dmitriev S. E., Ivanov D. S., Prassolov V. S., Shatsky I. N. (2003) Distinctive properties of the 5'-untranslated region of human hsp70 mRNA. J. Biol. Chem. 278(25):22350-22356
IRESs:
IRES:
Version: 5 Last change: 2009-09-01 20:29:00
Originaly submitted by: Václav Vopálenský Reviewed by: Martin Mokrejš
The IRES name:
  hsp70
Warning: please make ires_name same as the gene_name and optionally append to it coordinates. E.g. when gene/virus name is EMCV-R use EMCV-R_-222_to_-1 or EMCV-R_1-456, etc. but not Emcv-R-... or EMCV-222_to_-1. Please keep case of letters as well. This rewards when searching through the database.
The IRES absolute position (the range includes START and STOP codons or their equivalents):
  51-243
Conclusion:
  strongly_supported_IRES
How IRES boundaries were determined:
experimentally_determined
The sequence of IRES region aligned to its secondary structure (if available):


Remarks:
Deletion of the 5' end to nt 23 had no effect on the IRES activity. The HSP70 IRES appeared about 5x stronger
than HRV IRES.
Citations:
Rubtsova M. P., Sizova D. V., Dmitriev S. E., Ivanov D. S., Prassolov V. S., Shatsky I. N. (2003) Distinctive properties of the 5'-untranslated region of human hsp70 mRNA. J. Biol. Chem. 278(25):22350-22356
Last change to the database: 2015-04-16 16:45:23 GMT+1