IRESite_Id:67 summary record describing characteristics of hsp70 IRES

IRESite: The database of experimentally verified IRES structures

The nucleic acid data:

IRESite Id: `67`	Version: `2`
Originaly submitted by: Petra Sekyrová	Submission date: `2005-08-08 00:00:00`
Reviewed by: Martin Mokrejš	Last change: `2006-04-28 00:00:00`

IRESite record type:

natural_transcript

The shape of the nucleic acid molecule translated: `linear`	The quality of the mRNA/+RNA sequence: `possibly_wrong`
The abbreviated name of the virus/gene coding for this mRNA/+RNA molecule: `Hsp70Aa`	The genetic origin of this natural mRNA/+RNA: `nuclear`

The GenBankId GI:# number of exactly this mRNA/+RNA sequence:
24646134

Synonyms of the gene name:

Synonym: 87A

Synonym: hs70

Synonym: Hsp 70

Synonym: Hsp70A

Synonym: dhsp70

Synonym: hsp-70

Synonym: CG31366

Synonym: hsp70Aa

Synonym: hsp70 87A

Synonym: Protein 70

Synonym: hsp70(87A)

Synonym: heat shock 70

The mRNA/+RNA description:

Drosophila melanogaster CG31366-PA (Hsp70Aa) mRNA, complete cds.

The mRNA/+RNA sequence represented in the +DNA notation:

GAATATTCTA GAATCCCAAA ACAAACTGGT TGTTGCGGTA GGTCATTTGT TTGGCAGAAA GAAAACTCGA GAAATTTCTC TGGCCGTTAT TCTCTATTCG 
^1         ^11        ^21        ^31        ^41        ^51        ^61        ^71        ^81        ^91        

TTTTGTGACT CTCCCTCTTT GTACTATTGC TCTCTCACTC TGTCACACAG TAAACGGCGC ACTGTTCTCG TTGCTTCGAG AGAGCGCGCC TCGAATGTTC 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

GCGAAAAGAG CGCCGGAGTA TAAATAGAGG AGCTTCGTCG ACGGAGAGTC AATTCTATTC AAACAAGTAA AGTGAACACA TCGCTAAGCG AAAGCTAAGC 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

AAACAAACAA GCGCAGCTGA ACAAGCTAAA CAATCTGCAA TAAAGTGCAA GTTAAAGTGA ATCAATTAAA AGTAACCAAC AACCAAGTAA TTAAACTAAA 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

AACTGCAACT ACTGAAATCA ACCAAGAAGT AATTATTGAA GACAAGAAGA GAACTCTGAA TACTTTCAAC AAGTCGTTAC CGAGGAAGAA GAACTCACAC 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

ACAATGCCTG CTATTGGAAT CGATCTGGGC ACCACCTACT CCTGCGTGGG TGTCTACCAA CATGGCAAGG TGGAGATTAT CGCCAACGAC CAGGGCAACC 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

GCACCACGCC GTCCTACGTG GCTTTCACAG ATTCGGAACG CCTCATCGGC GATCCGGCTA AGAACCAGGT GGCCATGAAC CCCAGAAACA CAGTGTTTGA 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

CGCCAAGCGA CTGATCGGCC GAAAATACGA CGACCCCAAG ATCGCAGAGG ACATGAAGCA CTGGCCTTTC AAGGTTGTAA GCGACGGCGG AAAGCCCAAG 
^701       ^711       ^721       ^731       ^741       ^751       ^761       ^771       ^781       ^791       

ATCGGGGTGG AGTATAAGGG TGAGTCCAAG AGATTTGCCC CCGAGGAGAT CAGCTCGATG GTACTGACCA AGATGAAGGA GACGGCGGAG GCATATCTGG 
^801       ^811       ^821       ^831       ^841       ^851       ^861       ^871       ^881       ^891       

GCGAGAGCAT CACAGACGCA GTCATCACAG TTCCAGCCTA CTTCAACGAC TCCCAGCGCC AGGCTACCAA AGACGCCGGT CACATCGCCG GCCTGAATGT 
^901       ^911       ^921       ^931       ^941       ^951       ^961       ^971       ^981       ^991       

GCTCCGCATC ATCAATGAGC CCACGGCGGC AGCACTGGCC TACGGACTGG ACAAGAACCT CAAGGGTGAG CGCAATGTGC TTATCTTCGA CTTGGGCGGC 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

GGCACCTTCG ATGTCTCCAT CCTGACCATC GACGAGGGAT CACTGTTCGA GGTGCGCTCC ACCGCCGGAG ACACACACTT GGGCGGCGAG GACTTTGACA 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

ACCGGCTAGT CACTCATCTG GCGGACGAGT TCAAGCGCAA GTACAAGAAG GATCTGCGCT CCAACCCTCG CGCCCTACGA CGCCTCAGAA CAGCAGCTGA 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

ACGGGCCAAG CGCACACTCT CCTCCAGCAC GGAGGCCACC ATCGAGATTG ACGCACTGTT TGAGGGCCAA GACTTCTACA CCAAAGTGAG CCGCGCCAGG 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

TTTGAGGAGC TGTGCGCGGA CCTCTTCCGC AACACCCTGC AGCCTGTGGA GAAGGCCCTC AACGATGCCA AGATGGATAA GGGTCAGATC CACGACATCG 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

TGCTCGTCGG CGGATCCACT CGCATTCCCA AGGTGCAAAG TCTGCTGCAG GACTTCTTCC ACGGCAAGAA CCTCAACCTA TCCATCAACC CAGACGAGGC 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

AGTTGCATAC GGAGCTGCTG TGCAGGCCGC TATCCTCAGC GGAGACCAGA GCGGCAAGAT CCAGGACGTG CTGCTGGTGG ACGTGGCCCC ACTTTCATTG 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

GGAATTGAGA CCGCTGGAGG TGTAATGACC AAGCTGATCG AGCGCAACTG CCGCATTCCG TGCAAGCAGA CTAAGACGTT CTCCACATAC GCGGACAACC 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

AGCCCGGAGT CTCCATTCAG GTGTATGAGG GCGAACGTGC GATGACGAAG GACAACAATG CATTGGGCAC CTTCGATCTG TCCGGCATTC CACCTGCACC 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

AAGGGGTGTG CCCCAGATAG AAGTTACCTT CGACTTGGAC GCCAATGGAA TCCTGAACGT CAGCGCCAAG GAGATGAGCA CGGGCAAGGC CAAGAACATC 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

ACGATCAAGA ACGACAAGGG ACGGCTCTCG CAGGCCGAGA TTGATCGCAT GGTGAACGAG GCTGAAAAGT ACGCCGACGA GGACGAGAAG CATCGCCAGC 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

GAATAACCTC TAGAAATGCC CTGGAGAGCT ACGTCTTCAA TGTGAAGCAG GCCGTGGAAC AGGCACCTGC TGGCAAATTG GACGAGGCTG ACAAGAACTC 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

CGTCTTGGAC AAGTGCAACG ACACTATCCG GTGGCTGGAC AGCAACACCA CTGCCGAGAA GGAGGAGTTC GACCACAAGC TGGAGGAGCT CACCCGCCAC 
^2201      ^2211      ^2221      ^2231      ^2241      ^2251      ^2261      ^2271      ^2281      ^2291      

TGCTCCCCCA TCATGACCAA GATGCATCAG CAGGGTGCGG GAGCTGGAGC TGGTGGTCCG GGAGCAAACT GCGGCCAGCA GGCGGGAGGA TTTGGAGGCT 
^2301      ^2311      ^2321      ^2331      ^2341      ^2351      ^2361      ^2371      ^2381      ^2391      

ACTCTGGACC CACGGTCGAG GAGGTCGACT AAGGCCAAAG AGTCTAATTT TTGTTCATCA ATGGGTTATA ACATATGGGT TATATTATAA GTTTGTTTTA 
^2401      ^2411      ^2421      ^2431      ^2441      ^2451      ^2461      ^2471      ^2481      ^2491      

AGTTTTTGAG ACTGATAAGA ATGTTTCGAT CGAATATTCC ATAGAACAAC AATAGTATTA CCTAATTACC AAGTCTTAAT TTAGCAAAAA TGTTATTGCT 
^2501      ^2511      ^2521      ^2531      ^2541      ^2551      ^2561      ^2571      ^2581      ^2591      

TATAGAAAAA ATAAATTATT TATTGAATTT
^2601      ^2611      ^2621

Credibility of mRNA sequence:

guessed_as_the_sequence_was_never_published_by_authors_nor_described_in_sufficient_detail

The organism containing this mRNA with IRES segment in its genome:

Drosophila melanogaster

A promoter reported in cDNA corresponding to IRES sequence:
not tested The total number of notable open-reading frames (ORFs):
1

Notable Open-Reading Frames (ORFs; protein coding regions) in the mRNA/+RNA sequence:

ORF

ORF position:

1

Version: `0`
Originaly submitted by: Petra Sekyrová	Reviewed by: Martin Mokrejš

The abbreviated name of this ORF/gene:
Hsp70Aa

The description of the protein encoded in this ORF:
Drosophila heat shock protein 70

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):

504-2432

OPTIONAL: The function of the encoded protein

Drosophila heat shock protein 70

Remarks:

From the reference (Hernandez et al. 2004) is not clear, which isoform of Drosophila hsp-70 was used, thus
mRNA of hsp-70Aa isoform has been taken because of the longest 5'UTR sequence (all of 5'UTRs share strong
similarity).

Citations:

Hernandez G., Vazquez-Pianzola P., Sierra J. M., Rivera-Pomar R. (2004) Internal ribosome entry site drives cap-independent translation of reaper and heat shock protein 70 mRNAs in Drosophila embryos. RNA. 10(11):1783-1797

IRESs:

IRES:

Version: `6`	Last change: `2008-05-13 21:43:16`
Originaly submitted by: Petra Sekyrová	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):

1-503

Conclusion:
putative_IRES

How IRES boundaries were determined:
guessed

The sequence of IRES region aligned to its secondary structure (if available):

GAATATTCTA GAATCCCAAA ACAAACTGGT TGTTGCGGTA GGTCATTTGT TTGGCAGAAA GAAAACTCGA GAAATTTCTC TGGCCGTTAT TCTCTATTCG 
^1         ^11        ^21        ^31        ^41        ^51        ^61        ^71        ^81        ^91        

TTTTGTGACT CTCCCTCTTT GTACTATTGC TCTCTCACTC TGTCACACAG TAAACGGCGC ACTGTTCTCG TTGCTTCGAG AGAGCGCGCC TCGAATGTTC 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

GCGAAAAGAG CGCCGGAGTA TAAATAGAGG AGCTTCGTCG ACGGAGAGTC AATTCTATTC AAACAAGTAA AGTGAACACA TCGCTAAGCG AAAGCTAAGC 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

AAACAAACAA GCGCAGCTGA ACAAGCTAAA CAATCTGCAA TAAAGTGCAA GTTAAAGTGA ATCAATTAAA AGTAACCAAC AACCAAGTAA TTAAACTAAA 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

AACTGCAACT ACTGAAATCA ACCAAGAAGT AATTATTGAA GACAAGAAGA GAACTCTGAA TACTTTCAAC AAGTCGTTAC CGAGGAAGAA GAACTCACAC 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

ACA
^501

Remarks:

Authors have not specified (except Fig. 3) the range of 5'-UTR tested, thus whole sequence 1-503 is annotated
here as putative IRES sequence. Possible promoter existence was eliminated for reaper 5'-UTR, which is similar
to hsp70 and thus authors extrapolated the conclusion also to hsp70.

Integrity of bicistronic constructs used in vivo was tested by Northern blot. Integrity of the in vitro
transcripts was monitored using traces of 32P-labeled co-reporter RNA. Most of the experiments were performed
using reaper and not hsp70 UTR and utilized in vitro translation of capped/uncapped monocistronic mRNAs.

Citations:

Last change to the database: 2019-03-18 09:32:49 GMT+1