IRESite_Id:576 summary record describing characteristics of eIF4GI-ext IRES

IRESite: The database of experimentally verified IRES structures

The nucleic acid data:

IRESite Id: `576`	Version: `9`
Originaly submitted by: Martin Mokrejš	Submission date: `2009-03-22 20:38:21`
Reviewed by: Martin Mokrejš	Last change: `2009-10-13 11:13:20`

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: `eIF4GI`	The genetic origin of this natural mRNA/+RNA: `nuclear`

The GenBankId GI:# number of exactly this mRNA/+RNA sequence:
156523974

Synonyms of the gene name:

Synonym: eIF4G1

The mRNA/+RNA description:

Homo sapiens eukaryotic translation initiation factor 4 gamma (eIF4GI-ext), transcript variant 1, as
derived from the beta promoter. Poly(A)-tail sequence was dropped.

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

TCCTCGACGG CCGCCGCCCG CCTGGCCTTT TAGGGCCTGA CTCCCGCCCT TCCTGGCCTA CACTCCTGGG CGGCGGCAGG CCTAGCTTCT GGCCCAGTGC 
^1         ^11        ^21        ^31        ^41        ^51        ^61        ^71        ^81        ^91        

GGGTTCCCCG GCGGCAGGCG TATCCTGTGT GCCCCTGGGC CAGGCCCGAA CCCGGTGTCC CCGGGTGGGG GGTGGGGACG CCACGGCCGA AGCAGCTAGC 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

TCCGTTCGTG ATCCGGGAGC CTGGTGCCAG CGAGACCTGG AATTTCCGGT CTGGTTGGTC TGGGGCCCCG CGGAGCCAGG TTGATACCCT CACCTCCCAA 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

CCCCAGGCCC TCGGATGCCC AGAACCTGTA GGCCGCACCG TGGACTTGTT CTTAATCGAG GGGGTGCTGG GGGGACCCTG ATGTGGCACC AAATGAAATG 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

AACAAAGCTC CACAGTCCAC AGGCCCCCCA CCCGCCCCAT CCCCCGGACT CCCACAGCCA GCGTTTCCCC CGGGGCAGAC AGCGCCGGTG GTGTTCAGTA 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

CGCCACAAGC GACACAAATG AACACGCCTT CTCAGCCCCG CCAGCACTTC TACCCTAGCC GGGCCCAGCC CCCGAGCAGT GCAGCCTCCC GAGTGCAGAG 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

TGCAGCCCCT GCCCGCCCTG GCCCAGCTGC CCATGTCTAC CCTGCTGGAT CCCAAGTAAT GATGATCCCT TCCCAGATCT CCTACCCAGC CTCCCAGGGG 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

GCCTACTACA TCCCTGGACA GGGGCGTTCC ACATACGTTG TCCCGACACA GCAGTACCCT GTGCAGCCAG GAGCCCCAGG CTTCTATCCA GGTGCAAGCC 
^701       ^711       ^721       ^731       ^741       ^751       ^761       ^771       ^781       ^791       

CTACAGAATT TGGGACCTAC GCTGGCGCCT ACTATCCAGC CCAAGGGGTG CAGCAGTTTC CCACTGGCGT GGCCCCCGCC CCAGTTTTGA TGAACCAGCC 
^801       ^811       ^821       ^831       ^841       ^851       ^861       ^871       ^881       ^891       

ACCCCAGATT GCTCCCAAGA GGGAGCGTAA GACGATCCGA ATTCGAGATC CAAACCAAGG AGGAAAGGAT ATCACAGAGG AGATCATGTC TGGGGCCCGC 
^901       ^911       ^921       ^931       ^941       ^951       ^961       ^971       ^981       ^991       

ACTGCCTCCA CACCCACCCC TCCCCAGACG GGAGGCGGTC TGGAGCCTCA AGCTAATGGG GAGACGCCCC AGGTTGCTGT CATTGTCCGG CCAGATGACC 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

GGTCACAGGG AGCAATCATT GCTGACCGGC CAGGGCTGCC TGGCCCAGAG CATAGCCCTT CAGAATCCCA GCCTTCGTCG CCTTCTCCGA CCCCATCACC 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

ATCCCCAGTC TTGGAACCGG GGTCTGAGCC TAATCTCGCA GTCCTCTCTA TTCCTGGGGA CACTATGACA ACTATACAAA TGTCTGTAGA AGAATCAACC 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

CCCATCTCCC GTGAAACTGG GGAGCCATAT CGCCTCTCTC CAGAACCCAC TCCTCTCGCC GAACCCATAC TGGAAGTAGA AGTGACACTT AGCAAACCGG 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

TTCCAGAATC TGAGTTTTCT TCCAGTCCTC TCCAGGCTCC CACCCCTTTG GCATCTCACA CAGTGGAAAT TCATGAGCCT AATGGCATGG TCCCATCTGA 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

AGATCTGGAA CCAGAGGTGG AGTCAAGCCC AGAGCTTGCT CCTCCCCCAG CTTGCCCCTC CGAATCCCCT GTGCCCATTG CTCCAACTGC CCAACCTGAG 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

GAACTGCTCA ACGGAGCCCC CTCGCCACCA GCTGTGGACT TAAGCCCAGT CAGTGAGCCA GAGGAGCAGG CCAAGGAGGT GACAGCATCA ATGGCGCCCC 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

CCACCATCCC CTCTGCTACT CCAGCTACGG CTCCTTCAGC TACTTCCCCA GCTCAGGAGG AGGAAATGGA AGAAGAAGAA GAAGAGGAAG AAGGAGAAGC 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

AGGAGAAGCA GGAGAAGCTG AGAGTGAGAA AGGAGGAGAG GAACTGCTCC CCCCAGAGAG TACCCCTATT CCAGCCAACT TGTCTCAGAA TTTGGAGGCA 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

GCAGCAGCCA CTCAAGTGGC AGTATCTGTG CCAAAGAGGA GACGGAAAAT TAAGGAGCTA AATAAGAAGG AGGCTGTTGG AGACCTTCTG GATGCCTTCA 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

AGGAGGCGAA CCCGGCAGTA CCAGAGGTGG AAAATCAGCC TCCTGCAGGC AGCAATCCAG GCCCAGAGTC TGAGGGCAGT GGTGTGCCCC CACGTCCTGA 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

GGAAGCAGAT GAGACCTGGG ACTCAAAGGA AGACAAAATT CACAATGCTG AGAACATCCA GCCCGGGGAA CAGAAGTATG AATATAAGTC AGATCAGTGG 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

AAGCCTCTAA ACCTAGAGGA GAAAAAACGT TACGACCGTG AGTTCCTGCT TGGTTTTCAG TTCATCTTTG CCAGTATGCA GAAGCCAGAG GGATTGCCAC 
^2201      ^2211      ^2221      ^2231      ^2241      ^2251      ^2261      ^2271      ^2281      ^2291      

ATATCAGTGA CGTGGTGCTG GACAAGGCCA ATAAAACACC ACTGCGGCCA CTGGATCCCA CTAGACTACA AGGCATAAAT TGTGGCCCAG ACTTCACTCC 
^2301      ^2311      ^2321      ^2331      ^2341      ^2351      ^2361      ^2371      ^2381      ^2391      

ATCCTTTGCC AACCTTGGCC GGACAACCCT TAGCACCCGT GGGCCCCCAA GGGGTGGGCC AGGTGGGGAG CTGCCCCGTG GGCCGGCTGG CCTGGGACCC 
^2401      ^2411      ^2421      ^2431      ^2441      ^2451      ^2461      ^2471      ^2481      ^2491      

CGGCGCTCTC AGCAGGGACC CCGAAAAGAA CCACGCAAGA TCATTGCCAC AGTGTTAATG ACCGAAGATA TAAAACTGAA CAAAGCAGAG AAAGCCTGGA 
^2501      ^2511      ^2521      ^2531      ^2541      ^2551      ^2561      ^2571      ^2581      ^2591      

AACCCAGCAG CAAGCGGACG GCGGCTGATA AGGATCGAGG GGAAGAAGAT GCTGATGGCA GCAAAACCCA GGACCTATTC CGCAGGGTGC GCTCCATCCT 
^2601      ^2611      ^2621      ^2631      ^2641      ^2651      ^2661      ^2671      ^2681      ^2691      

GAATAAACTG ACACCCCAGA TGTTCCAGCA GCTGATGAAG CAAGTGACGC AGCTGGCCAT CGACACCGAG GAACGCCTCA AAGGGGTCAT TGACCTCATT 
^2701      ^2711      ^2721      ^2731      ^2741      ^2751      ^2761      ^2771      ^2781      ^2791      

TTTGAGAAGG CCATTTCAGA GCCCAACTTC TCTGTGGCCT ATGCCAACAT GTGCCGCTGC CTCATGGCGC TGAAAGTGCC CACTACGGAA AAGCCAACAG 
^2801      ^2811      ^2821      ^2831      ^2841      ^2851      ^2861      ^2871      ^2881      ^2891      

TGACTGTGAA CTTCCGAAAG CTGTTGTTGA ATCGATGTCA GAAGGAGTTT GAGAAAGACA AAGATGATGA TGAGGTTTTT GAGAAGAAGC AAAAAGAGAT 
^2901      ^2911      ^2921      ^2931      ^2941      ^2951      ^2961      ^2971      ^2981      ^2991      

GGATGAAGCT GCTACGGCAG AGGAACGAGG ACGCCTGAAG GAAGAGCTGG AAGAGGCTCG GGACATAGCC CGGCGGCGCT CTTTAGGGAA TATCAAGTTT 
^3001      ^3011      ^3021      ^3031      ^3041      ^3051      ^3061      ^3071      ^3081      ^3091      

ATTGGAGAGT TGTTCAAACT GAAGATGTTA ACAGAGGCAA TAATGCATGA CTGTGTGGTC AAACTGCTTA AGAACCATGA TGAAGAGTCC CTTGAGTGCC 
^3101      ^3111      ^3121      ^3131      ^3141      ^3151      ^3161      ^3171      ^3181      ^3191      

TTTGTCGTCT GCTCACCACC ATTGGCAAAG ACCTGGACTT TGAAAAAGCC AAGCCCCGAA TGGATCAGTA TTTCAACCAG ATGGAAAAAA TCATTAAAGA 
^3201      ^3211      ^3221      ^3231      ^3241      ^3251      ^3261      ^3271      ^3281      ^3291      

AAAGAAGACG TCATCCCGCA TCCGCTTTAT GCTGCAGGAC GTGCTGGATC TGCGAGGGAG CAATTGGGTG CCACGCCGAG GGGATCAGGG TCCCAAGACC 
^3301      ^3311      ^3321      ^3331      ^3341      ^3351      ^3361      ^3371      ^3381      ^3391      

ATTGACCAGA TCCATAAGGA GGCTGAGATG GAAGAACATC GAGAGCACAT CAAAGTGCAG CAGCTCATGG CCAAGGGCAG TGACAAGCGT CGGGGCGGTC 
^3401      ^3411      ^3421      ^3431      ^3441      ^3451      ^3461      ^3471      ^3481      ^3491      

CTCCAGGCCC TCCCATCAGC CGTGGACTTC CCCTTGTGGA TGATGGTGGC TGGAACACAG TTCCCATCAG CAAAGGTAGC CGCCCCATTG ACACCTCACG 
^3501      ^3511      ^3521      ^3531      ^3541      ^3551      ^3561      ^3571      ^3581      ^3591      

ACTCACCAAG ATCACCAAGC CTGGCTCCAT CGATTCTAAC AACCAGCTCT TTGCACCTGG AGGGCGACTG AGCTGGGGCA AGGGCAGCAG CGGAGGCTCA 
^3601      ^3611      ^3621      ^3631      ^3641      ^3651      ^3661      ^3671      ^3681      ^3691      

GGAGCCAAGC CCTCAGACGC AGCATCAGAA GCTGCTCGCC CAGCTACTAG TACTTTGAAT CGCTTCTCAG CCCTTCAACA AGCGGTACCC ACAGAAAGCA 
^3701      ^3711      ^3721      ^3731      ^3741      ^3751      ^3761      ^3771      ^3781      ^3791      

CAGATAATAG ACGTGTGGTG CAGAGGAGTA GCTTGAGCCG AGAACGAGGC GAGAAAGCTG GAGACCGAGG AGACCGCCTA GAGCGGAGTG AACGGGGAGG 
^3801      ^3811      ^3821      ^3831      ^3841      ^3851      ^3861      ^3871      ^3881      ^3891      

GGACCGTGGG GACCGGCTTG ATCGTGCGCG GACACCTGCT ACCAAGCGGA GCTTCAGCAA GGAAGTGGAG GAGCGGAGTA GAGAACGGCC CTCCCAGCCT 
^3901      ^3911      ^3921      ^3931      ^3941      ^3951      ^3961      ^3971      ^3981      ^3991      

GAGGGGCTGC GCAAGGCAGC TAGCCTCACG GAGGATCGGG ACCGTGGGCG GGATGCCGTG AAGCGAGAAG CTGCCCTACC CCCAGTGAGC CCCCTGAAGG 
^4001      ^4011      ^4021      ^4031      ^4041      ^4051      ^4061      ^4071      ^4081      ^4091      

CGGCTCTCTC TGAGGAGGAG TTAGAGAAGA AATCCAAGGC TATCATTGAG GAATATCTCC ATCTCAATGA CATGAAAGAG GCAGTCCAGT GCGTGCAGGA 
^4101      ^4111      ^4121      ^4131      ^4141      ^4151      ^4161      ^4171      ^4181      ^4191      

GCTGGCCTCA CCCTCCTTGC TCTTCATCTT TGTACGGCAT GGTGTCGAGT CTACGCTGGA GCGCAGTGCC ATTGCTCGTG AGCATATGGG GCAGCTGCTG 
^4201      ^4211      ^4221      ^4231      ^4241      ^4251      ^4261      ^4271      ^4281      ^4291      

CACCAGCTGC TCTGTGCTGG GCATCTGTCT ACTGCTCAGT ACTACCAAGG GTTGTATGAA ATCTTGGAAT TGGCTGAGGA CATGGAAATT GACATCCCCC 
^4301      ^4311      ^4321      ^4331      ^4341      ^4351      ^4361      ^4371      ^4381      ^4391      

ACGTGTGGCT CTACCTAGCG GAACTGGTAA CACCCATTCT GCAGGAAGGT GGGGTGCCCA TGGGGGAGCT GTTCAGGGAG ATTACAAAGC CTCTGAGACC 
^4401      ^4411      ^4421      ^4431      ^4441      ^4451      ^4461      ^4471      ^4481      ^4491      

GTTGGGCAAA GCTGCTTCCC TGTTGCTGGA GATCCTGGGC CTCCTGTGCA AAAGCATGGG TCCTAAAAAG GTGGGGACGC TGTGGCGAGA AGCCGGGCTT 
^4501      ^4511      ^4521      ^4531      ^4541      ^4551      ^4561      ^4571      ^4581      ^4591      

AGCTGGAAGG AATTTCTACC TGAAGGCCAG GACATTGGTG CATTCGTCGC TGAACAGAAG GTGGAGTATA CCCTGGGAGA GGAGTCGGAA GCCCCTGGCC 
^4601      ^4611      ^4621      ^4631      ^4641      ^4651      ^4661      ^4671      ^4681      ^4691      

AGAGGGCACT CCCCTCCGAG GAGCTGAACA GGCAGCTGGA GAAGCTGCTG AAGGAGGGCA GCAGTAACCA GCGGGTGTTC GACTGGATAG AGGCCAACCT 
^4701      ^4711      ^4721      ^4731      ^4741      ^4751      ^4761      ^4771      ^4781      ^4791      

GAGTGAGCAG CAGATAGTAT CCAACACGTT AGTTCGAGCC CTCATGACGG CTGTCTGCTA TTCTGCAATT ATTTTTGAGA CTCCCCTCCG AGTGGACGTT 
^4801      ^4811      ^4821      ^4831      ^4841      ^4851      ^4861      ^4871      ^4881      ^4891      

GCAGTGCTGA AAGCGCGAGC GAAGCTGCTG CAGAAATACC TGTGTGACGA GCAGAAGGAG CTACAGGCGC TCTACGCCCT CCAGGCCCTT GTAGTGACCT 
^4901      ^4911      ^4921      ^4931      ^4941      ^4951      ^4961      ^4971      ^4981      ^4991      

TAGAACAGCC TCCCAACCTG CTGCGGATGT TCTTTGACGC ACTGTATGAC GAGGACGTGG TGAAGGAGGA TGCCTTCTAC AGTTGGGAGA GTAGCAAGGA 
^5001      ^5011      ^5021      ^5031      ^5041      ^5051      ^5061      ^5071      ^5081      ^5091      

CCCCGCTGAG CAGCAGGGCA AGGGTGTGGC CCTTAAATCT GTCACAGCCT TCTTCAAGTG GCTCCGTGAA GCAGAGGAGG AGTCTGACCA CAACTGAGGG 
^5101      ^5111      ^5121      ^5131      ^5141      ^5151      ^5161      ^5171      ^5181      ^5191      

CTGGTGGGGC CGGGGACCTG GAGCCCCATG GACACACAGA TGGCCCGGCT AGCCGCCTGG ACTGCAGGGG GGCGGCAGCA GCGGCGGTGG CAGTGGGTGC 
^5201      ^5211      ^5221      ^5231      ^5241      ^5251      ^5261      ^5271      ^5281      ^5291      

CTGTAGTGTG ATGTGTCTGA ACTAATAAAG TGGCTGAAGA GGCAGGATGG CTTGGGGCTG CCTGGGCCCC CCTCCAGGAT GCCGCCAGGT GTCCCTCTCC 
^5301      ^5311      ^5321      ^5331      ^5341      ^5351      ^5361      ^5371      ^5381      ^5391      

TCCCCCTGGG GCACAGAGAT ATATTATATA TAAAGTCTTG AAATTTGGTG TGTCTTGGGG TGGGGAGGGG CACCAACGCC TGCCCCTGGG GTCCTTTTTT 
^5401      ^5411      ^5421      ^5431      ^5441      ^5451      ^5461      ^5471      ^5481      ^5491      

TTATTTTCTG AAAATCACTC TCGGGACTGC CGTCCTCGCT GCTGGGGGCA TATGCCCCAG CCCCTGTACC ACCCCTGCTG TTGCCTGGGC AGGGGGAAGG 
^5501      ^5511      ^5521      ^5531      ^5541      ^5551      ^5561      ^5571      ^5581      ^5591      

GGGGGCACGG TGCCTGTAAT TATTAAACAT GAATTCAATT AAGCTC
^5601      ^5611      ^5621      ^5631      ^5641

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:
unclear 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:
heterogeneous_population_of_molecules_found

Integrity (uniformity) of mRNA tested using S1 nuclease mapping:
not_tested

Cryptic promoter presence was confirmed by expression from a promoter-less plasmid:
unclear_result

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:

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: `0`
Originaly submitted by: Martin Mokrejš	Reviewed by: Martin Mokrejš

The abbreviated name of this ORF/gene:
eIF4GI

The description of the protein encoded in this ORF:
eukaryotic translation initiation factor 4 gamma, 1 isoform 1

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:

yes

The ORF absolute position (the base range includes START and STOP codons or their equivalents):

398-5197

Remarks:

Initially, Gradi et al. (1998) reported partial eIF4GI transcript which sequence was later extended at its
5'-end by 180nt by Johannes and Sarnow (1998) and named eIF4GI-ext (this transcript, NM_182917.3,
GI:156523974) which is derived from the beta promoter located in exons 3 and 4 of some other mRNAs.
Specifically, these exons appear also in NM_198241 (not covered by IRESite) which is derived from the alpha
promoter and therefore it is not possible to judge which transcript was partially cloned.

Byrd et al. (2005) reported promoter activity of the region between exons 1 and 2 and spanning partly into the
exon 2, cDNA obtained from human BAC clone RP 11-125E8 (Figure 1A, white bar). IRESite curator found sequence
of the clone under accession AC078797. Further to note, the region spanning exons 1-8 (the alpha-promoter
driven variant) when tested in promoter-less plasmids displayed detectable reporter protein level and siRNA
approach resulted in incomplete reduction of reporter protein levels. Authors concluded that either a weak
promoter is present in the region or a splicing issue exists in human 293T cells (Figure 4). The beta-promoter
driven messages eIF4GI and eIF4GI-ext are shorter but still share exons 2-8 and so this might still apply.

This is the longest transcript bearing the eIF4GI CDS described and is the only splice variant derived from
the beta promoter (currently accessible in RefSeq under NM_182917.3). Nowadays the RefSeq record NM_182917.3
is slightly longer by 123 bp on the very 5'-end than the original AY082886 submitted by Byrd et al. (2005) which
they termed SP4GI. In contrast, SP4GI is slightly longer than the clone called pAD-4GI, studied earlier (R.
Rhoads), see Figure 3A in Byrd et al. (2002).

Citations:

Johannes G., Sarnow P. (1998) Cap-independent polysomal association of natural mRNAs encoding c-myc, BiP, and eIF4G conferred by internal ribosome entry sites. RNA. 4(12):1500-1513

Gradi A., Imataka H., Svitkin Y. V., Rom E., Raught B., Morino S., Sonenberg N. (1998) A novel functional human eukaryotic translation initiation factor 4G. Mol. Cell. Biol. 18(1):334-342

Byrd M. P., Zamora M., Lloyd R. E. (2005) Translation of eukaryotic translation initiation factor 4GI (eIF4GI) proceeds from multiple mRNAs containing a novel cap-dependent internal ribosome entry site (IRES) that is active during poliovirus infection. J. Biol. Chem. 280(19):18610-18622

IRESs:

IRES:

Version: `4`	Last change: `2009-10-13 11:13:20`
Originaly submitted by: Martin Mokrejš	Reviewed by: Martin Mokrejš
The IRES name: `eIF4GI-ext`

The IRES absolute position (the range includes START and STOP codons or their equivalents):

464-659

Conclusion:
probably_not_IRES

How IRES boundaries were determined:
experimentally_determined

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

TTTCCCCCGG GGCAGACAGC GCCGGTGGTG TTCAGTACGC CACAAGCGAC ACAAATGAAC ACGCCTTCTC AGCCCCGCCA GCACTTCTAC CCTAGCCGGG 
^464       ^474       ^484       ^494       ^504       ^514       ^524       ^534       ^544       ^554       

CCCAGCCCCC GAGCAGTGCA GCCTCCCGAG TGCAGAGTGC AGCCCCTGCC CGCCCTGGCC CAGCTGCCCA TGTCTACCCT GCTGGATCCC AAGTAA
^564       ^574       ^584       ^594       ^604       ^614       ^624       ^634       ^644       ^654

Remarks:

The 5'-UTR (nucleotides 1-196 of their partial transcript) studied by Johannes and Sarnow was shown in Figure
6B and 8A and align to the sequence of this IRESite record exactly since the 5'-end. This region is actually
within the protein coding region of the longest protein but in front of the following protein coding sequence
and roughly maps to exons 3 and 4:

MIPSQISYPASQGAYYIPGQGRSTYVVPTQQYPVQPGAPGFYPGASPTEFGTYAGAYYPAQGVQQFPTGVAPAPVLMNQPPQIAPKRERKTIRIRDPNQGGKDITEEIMSGARTAS
MIPSQISYPASQGAYYIPGQGRSTYVVPTQQYPVQPGAPGFYPGASPTEFGTYAGAYYPAQGVQQFPTGVAPAPVLMNQPPQIAPKRERKTIRIRDPNQGGKDITEEIMSGARTAST
MIPSQISYPASQGAYYIPGQGRSTYVVPTQQYPVQPGAPGFYPGASPTEFGTYAGAYYPAQGVQQFPTGVAPAPVLMNQPPQIAPKRERKTIRIRDPNQGGKDITEEIMSGARTASTP
MIPSQISYPASQGAYYIPGQGRSTYVVPTQQYPVQPGAPGFYPGASPTEFGTYAGAYYPAQGVQQFPTGVAPAPVLMNQPPQIAPKRERKTIRIRDPNQGGKDITEEIMSGARTASTPT
MIPSQISYPASQGAYYIPGQGRSTYVVPTQQYPVQPGAPGFYPGASPTEFGTYAGAYYPAQGVQQFPTGVAPAPVLMNQPPQIAPKRERKTIRIRDPNQGGKDITEEIMSGARTASTPT.
MIPSQISYPASQGAYYIPGQGRSTYVVPTQQYPVQPGAPGFYPGASPTEFGTYAGAYYPAQGVQQFPTGVAPAPVLMNQPPQIAPKRERKTIRIRDPNQGGKDITEEIMSGARTASTPT..
MIPSQISYPASQGAYYIPGQGRSTYVVPTQQYPVQPGAPGFYPGASPTEFGTYAGAYYPAQGVQQFPTGVAPAPVLMNQPPQIAPKRERKTIRIRDPNQGGKDITEEIMSGARTASTPT..
MIPSQISYPASQGAYYIPGQGRSTYVVPTQQYPVQPGAPGFYPGASPTEFGTYAGAYYPAQGVQQFPTGVAPAPVLMNQPPQIAPKRERKTIRIRDPNQGGKDITEEIMSGARTASTPT..
MIPSQISYPASQGAYYIPGQGRSTYVVPTQQYPVQPGAPGFYPGASPTEFGTYAGAYYPAQGVQQFPTGVAPAPVLMNQPPQIAPKRERKTIRIRDPNQGGKDITEEIMSGARTASTPT..
MIPSQISYPASQGAYYIPGQGRSTYVVPTQQYPVQPGAPGFYPGASPTEFGTYAGAYYPAQGVQQFPTGVAPAPVLMNQPPQIAPKRERKTIRIRDPNQGGKDITEEIMSGARTASTPT..
MIPSQISYPASQGAYYIPGQGRSTYVVPTQQYPVQPGAPGFYPGASPTEFGTYAGAYYPAQGVQQFPTGVAPAPVLMNQPPQIAPKRERKTIRIRDPNQGGKDITEEIMSGARTASTPT...
In Figure 8 is was shown that eIG4GI-ext (this IRESite entry) relatively well in comparison with PV IRES in CAT/LUC
vector. Byrd et al. (2005) in agreement confined IRES activity to exon 4.

Citations:

Johannes G., Sarnow P. (1998) Cap-independent polysomal association of natural mRNAs encoding c-myc, BiP, and eIF4G conferred by internal ribosome entry sites. RNA. 4(12):1500-1513

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