IRESite_Id:637 summary record describing characteristics of EV71

IRESite: The database of experimentally verified IRES structures

The nucleic acid data:

IRESite Id: `637`	Version: `0`
Originaly submitted by: Martin Mokrejš	Submission date: `2009-09-17 03:48:52`
Reviewed by: Martin Mokrejš

IRESite record type:

natural_transcript

The shape of the nucleic acid molecule translated: `linear`	The quality of the mRNA/+RNA sequence: `end-to-end_full-length_mRNA`
The abbreviated name of the virus/gene coding for this mRNA/+RNA molecule: `EV71`	The genetic origin of this natural mRNA/+RNA: `viral`

The GenBankId GI:# number of exactly this mRNA/+RNA sequence:
66967945

The mRNA/+RNA description:

Human enterovirus 71 strain pinf7-54A from Taiwan, complete genome.

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

ttaaaacagc ctgtgggttg cacccaccca cagggcccac tgggcgctag cactctggta ctgaggtacc tttgtgcgcc tgtttttact ccccttcccc 
^1         ^11        ^21        ^31        ^41        ^51        ^61        ^71        ^81        ^91        

cgaagtaact tagaagctgt aaatcaacga tcaatagcag gtgtggcaca ccagtcatac cttgatcaag cacttctgtt tccccggact gagtatcaat 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

aggctgctcg cgcggctgaa ggagaaaacg ttcgttaccc gaccaactac ttcgagaagc ttagtaccac catgaacgag gcagggtgtt tcgctcagca 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

caaccccagt gtagatcagg ctgatgagtc actgcaaccc ccatgggcga ccatggcagt ggctgcgttg gcggcctgcc catggagaaa tccatgggac 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

gctctaattc tgacatggtg tgaagagcct attgagctag ctggtagtcc tccggcccct gaatgcggct aatcctaact gcggagcaca tgctcacaaa 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

ccagtgggtg gtgtgtcgta acgggcaact ctgcagcgga accgactact ttgggtgtcc gtgtttcctt ttattcctat attggctgct tatggtgaca 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

atcaaaaagt tgttaccata tagctattgg attggccatc cggtgtgcaa cagggcaatt gtttacctat ttattggttt tgtaccatta tcactgaagt 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

ctgtgatcac tctcaaattc attttgaccc tcaacacaat caaacatggg ctcacaggtg tccacacagc gctccggttc gcacgaaaac tctaactcag 
^701       ^711       ^721       ^731       ^741       ^751       ^761       ^771       ^781       ^791       

ctaccgaggg ttccactata aactatacta ccattaatta ctataaagat tcctatgccg ccacagcagg taagcagagc cttaagcagg acccagacaa 
^801       ^811       ^821       ^831       ^841       ^851       ^861       ^871       ^881       ^891       

gtttgcaaat cctgtcaaag acatcttcac tgaaatggca gcgccattaa aatctccatc tgccgaggca tgtggttaca gcgatcgggt ggcacaatta 
^901       ^911       ^921       ^931       ^941       ^951       ^961       ^971       ^981       ^991       

actattggca attctaccat cactacgcaa gaagcagcaa acatcatagt tggctatggt gagtggcctt cctactgttc ggactctgat gctactgcag 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

tggacaaacc aacgcgccca gatgtttcgg tgaataggtt ttacacattg gacacaaaat tgtgggagaa atcatccaag gggtggtact ggaaattccc 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

ggatgtgtta actgaaaccg gggtctttgg tcaaaatgca cagttccact acctctatcg gtcagggttc tgcattcacg tgcagtgcaa tgctagtaag 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

ttccaccaag gagcactcct agtcgctgtc ctcccagagt atgtcattgg gacagtggca ggtggcacag ggacggagga tagccacccc ccttataagc 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

agactcaacc cggtgctgat ggcttcgaat tgcaacaccc gtacgtgctt gatgctggca ttccaatatc acaattaaca gtgtgcccac atcagtggat 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

taatttgagg accaacaatt gtgccacaat aatagtgccg tacataaacg cactaccctt tgattctgcc ttgaaccatt gtaactttgg tctgctggtt 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

gtgcctatta gcccgttaga ttatgaccaa ggtgcgacgc cagtgatccc cattactatc actttggccc caatgtgttt tgaatttgca ggctttagac 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

aagcagttac gcaagggttt cctactgagt tgaaacctgg cacaaaccaa tttttaacca ctgacgatgg cgtctcagca cccattctgc caaactttca 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

ccccaccccg tgtatccata tacccggtga agttagaaac ttgctagagc tatgccaggt ggagaccatt ttagaggtca acaatgtacc tacgaatgcc 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

actagcttaa tggagagact gcgcttcccg gtctcagctc aagccgggaa aggtgagcta tgtgcagtgt tcagagctga ccctggacga agtgggccat 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

ggcagtccac cttgttgggc cagttgtgcg ggtactacac ccaatggtca ggatcactgg aagtcacctt catgttcacc gggtccttta tggctaccgg 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

caagatgctc atagcataca caccaccagg aggcccctta cccaaggacc gggcgaccgc catgttgggc acggacgtca tctgggactt tgggctgcaa 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

tcgtctgtca ctcttgtaat accatggatc agcaacactc attacagagc gcacgctcga gatggtgtgt ttgactacta cactacaggt ttggttagca 
^2201      ^2211      ^2221      ^2231      ^2241      ^2251      ^2261      ^2271      ^2281      ^2291      

tatggtacca gacgaattat gtggttccaa ttggagcacc caatacagcc tatataatag cattggcggc agcccagaag aacttcacca tgaagttgtg 
^2301      ^2311      ^2321      ^2331      ^2341      ^2351      ^2361      ^2371      ^2381      ^2391      

taaggatgct agtgatatcc tacagacagg cactatccag ggagataggg tggcagatgt gattgagagt tctatagggg acagcgtgag cagagccctc 
^2401      ^2411      ^2421      ^2431      ^2441      ^2451      ^2461      ^2471      ^2481      ^2491      

acccgagctc taccggcacc taccggccaa gacacacagg taagcagcca tcgattagat actggtaaag gtccagcact ccaagccgct gaaattggag 
^2501      ^2511      ^2521      ^2531      ^2541      ^2551      ^2561      ^2571      ^2581      ^2591      

catcatcaaa tgctagtgat gagagtatga ttgagacacg gtgtgttctt aattcacata gcacagctga gaccactctt gatagcttct tcagcagagc 
^2601      ^2611      ^2621      ^2631      ^2641      ^2651      ^2661      ^2671      ^2681      ^2691      

aggattagtt ggagagatag acctccctct tgaaggcaca accaacccga atgggtacgc aaactgggac atagacataa caggttacgc gcaaatgcgt 
^2701      ^2711      ^2721      ^2731      ^2741      ^2751      ^2761      ^2771      ^2781      ^2791      

agaaaggtgg agctgttcac ctacatgcgt tttaacgcag agatcacctt tgttgcatgc acccctaccg gggaagttgt cccgcaattg ctccaatata 
^2801      ^2811      ^2821      ^2831      ^2841      ^2851      ^2861      ^2871      ^2881      ^2891      

tgtttgtacc acccggagcc cccaagccag actccagaga atctctcgca tggcaaactg ccactaatcc ctcggttttt gtgaagctgt cagacccccc 
^2901      ^2911      ^2921      ^2931      ^2941      ^2951      ^2961      ^2971      ^2981      ^2991      

agcacaggtt tctgttccat tcatgtcacc tgcgagcgcc tatcaatggt tttatgacgg gtatcccaca ttcggtgaac acaaacagga gaaagacctt 
^3001      ^3011      ^3021      ^3031      ^3041      ^3051      ^3061      ^3071      ^3081      ^3091      

gaatacgggg catgcccaaa caacatgatg ggtacgttct cagtgcggac tgtaggcacc tcgaagtcca agtgcccatt ggtgatcagg atttacatga 
^3101      ^3111      ^3121      ^3131      ^3141      ^3151      ^3161      ^3171      ^3181      ^3191      

ggatgaagca cgtcagggcg tggatacctc gcccaatgcg taaccagaac tatctattca aagccaaccc aaattatgct ggtaattcta ttaaaccaac 
^3201      ^3211      ^3221      ^3231      ^3241      ^3251      ^3261      ^3271      ^3281      ^3291      

tggtgccagt cgcacagcaa ttaccactct cgggaaattt ggacagcagt ccggagctat ctacgtgggc aactttagag tggttaaccg ccatcttgct 
^3301      ^3311      ^3321      ^3331      ^3341      ^3351      ^3361      ^3371      ^3381      ^3391      

actcataatg actgggcaaa ccttgtttgg gaagacagct cccgcgactt gctcgtatca tctaccactg ctcaaggttg tgacacgatt gctcgttgca 
^3401      ^3411      ^3421      ^3431      ^3441      ^3451      ^3461      ^3471      ^3481      ^3491      

attgccagac aggagtgtat tattgtaact caatgagaaa acactatccg gtcagtttct cgaaacccag tttgatcttc ctggaggcca gcgagtatta 
^3501      ^3511      ^3521      ^3531      ^3541      ^3551      ^3561      ^3571      ^3581      ^3591      

tccagctaga taccagtcac atctcatgct tgcagtgggt cattcggaac caggggattg cggtggcatt cttagatgcc aacatggcgt cgtagggata 
^3601      ^3611      ^3621      ^3631      ^3641      ^3651      ^3661      ^3671      ^3681      ^3691      

gtttccaccg ggggaaatgg cctggtgggg ttcgccgatg tgagggatct tctgtggttg gatgatgaag ccatggagca gggcgtgtct gattacatta 
^3701      ^3711      ^3721      ^3731      ^3741      ^3751      ^3761      ^3771      ^3781      ^3791      

aagggcttgg agatgctttt ggcatggggt ttacaggcgc agtgtcaaga gaagttgaag cactgaaaag ttacttgacc ggctcagagg gtgccgtgga 
^3801      ^3811      ^3821      ^3831      ^3841      ^3851      ^3861      ^3871      ^3881      ^3891      

gaagattcta aagaacttag ttaaactcat ctctgcgctc gtcatcgtca tcaggagtga ttatgacatg gtcacattga cggcaacact tgccctgatc 
^3901      ^3911      ^3921      ^3931      ^3941      ^3951      ^3961      ^3971      ^3981      ^3991      

gggtgccacg ggagcccttg ggcctgggtt aagtcgaaga cagcatcaat tttgggcata ccgatggctc agaagcagaa tgcctcttgg ttaaagaaat 
^4001      ^4011      ^4021      ^4031      ^4041      ^4051      ^4061      ^4071      ^4081      ^4091      

tcaacgatgc ggcgaatgcc gcgaaggggc ttgagtggat ctccaacaaa atcagtaaat ttatcgattg ggtcaaggag aaaatcgtac cggctgctaa 
^4101      ^4111      ^4121      ^4131      ^4141      ^4151      ^4161      ^4171      ^4181      ^4191      

agagaaagtc gagtttctaa acaatctaaa gcaactcccc ttattggaga accaaatttc taatctcgaa cagtcagcag cttcgcagga ggaccttgag 
^4201      ^4211      ^4221      ^4231      ^4241      ^4251      ^4261      ^4271      ^4281      ^4291      

gcgatgtttg gcaacgtgtc ttatctggcc cacttctgcc gcaaattcca acccctctat gccacggaag caaagagggt gtacgcccta gaaaagagaa 
^4301      ^4311      ^4321      ^4331      ^4341      ^4351      ^4361      ^4371      ^4381      ^4391      

tgaataatta catgcagttc aagagcaaac accgtattga acctgtatgc ctaatcatca gaggctcgcc tggtactggg aagtccttgg caacagggat 
^4401      ^4411      ^4421      ^4431      ^4441      ^4451      ^4461      ^4471      ^4481      ^4491      

tattgctaga gccatagcag acaagtacca ctccagtgtg tattccttac ctccagaccc agaccacttt gacggataca aacaacagat cgtcactgtt 
^4501      ^4511      ^4521      ^4531      ^4541      ^4551      ^4561      ^4571      ^4581      ^4591      

atggacgacc tatgccaaaa cccagacggg aaagacatgt cactattttg tcagatggtc tccacagtgg attttatacc gcctatggca tctctggagg 
^4601      ^4611      ^4621      ^4631      ^4641      ^4651      ^4661      ^4671      ^4681      ^4691      

agaagggagt ctcattcacc tccaagtttg tgattgcctc cactaacgcc agtaacatca tagtgccaac agtctcggat tcagatgcca tccgtcgccg 
^4701      ^4711      ^4721      ^4731      ^4741      ^4751      ^4761      ^4771      ^4781      ^4791      

gttctttatg gactgcgaaa ttgaagtgac cgattcctat aagacagaac tgggcagact tgatgcaggg agagcagcca ggctgtgctc tgagaacaac 
^4801      ^4811      ^4821      ^4831      ^4841      ^4851      ^4861      ^4871      ^4881      ^4891      

actgcaaact ttaaacggtg cagtccatta gtctgtggga aggcaatcca gcttagggat aggaagtcca aggtgagata cagtgtggac acggtagtga 
^4901      ^4911      ^4921      ^4931      ^4941      ^4951      ^4961      ^4971      ^4981      ^4991      

gtgaacttat cagggagtat aacaacagat cagttattgg gaacaccatt gaagctcttt tccaaggacc ccctaaattt aggccaataa ggattagctt 
^5001      ^5011      ^5021      ^5031      ^5041      ^5051      ^5061      ^5071      ^5081      ^5091      

agaggagaaa cccgcacctg atgctattag tgacctatta gctagtgttg atagtgaaga ggttcgccaa tactgtagag atcagggatg gattgtacct 
^5101      ^5111      ^5121      ^5131      ^5141      ^5151      ^5161      ^5171      ^5181      ^5191      

gattctccca ccaacgttga gcgccacttg aatagagctg tcttgattat gcagtctgta gccaccgtgg tagcagttgt gtcccttgtt tacgtcatct 
^5201      ^5211      ^5221      ^5231      ^5241      ^5251      ^5261      ^5271      ^5281      ^5291      

acaagttgtt cgccggtttt caaggagcat attccggcgc ccccaagcaa acactcaaga aaccagtgct gcgcacggca actgtgcagg ggccgagctt 
^5301      ^5311      ^5321      ^5331      ^5341      ^5351      ^5361      ^5371      ^5381      ^5391      

ggacttcgcc ctatctctac ttaggaggaa cattaggcag gtccaaaccg accagggcca ctttacaatg ttaggagtgc gagaccgctt ggctgtgctc 
^5401      ^5411      ^5421      ^5431      ^5441      ^5451      ^5461      ^5471      ^5481      ^5491      

cccagacact cccaaccagg aaagaccatc tgggttgaac acaaattagt gaagatcgta gatgctgtgg agttagtaga cgaacaaggg gttaacttag 
^5501      ^5511      ^5521      ^5531      ^5541      ^5551      ^5561      ^5571      ^5581      ^5591      

agctcacact ggtaacgctt gatactaacg aaaaatttag agacatcaca agattcatac cagaaacaat tagtcctgct agtgatgcca ctttagttat 
^5601      ^5611      ^5621      ^5631      ^5641      ^5651      ^5661      ^5671      ^5681      ^5691      

aaatactgaa catatgccca gtatgtttgt gccagttgga gatgtggtcc agtatgggtt tttgaacctt agtggtaagc ccactcacag gactatgatg 
^5701      ^5711      ^5721      ^5731      ^5741      ^5751      ^5761      ^5771      ^5781      ^5791      

tacaatttcc caacaaaagc aggacagtgt ggtggtgttg tgactgccgt gggtaaagtg attgggatcc acattggtgg caacggtaga caaggtttct 
^5801      ^5811      ^5821      ^5831      ^5841      ^5851      ^5861      ^5871      ^5881      ^5891      

gcgctgccct gaagagggga tacttttgca gtgaacaagg tgagatccaa tggatgaagc ccaacaaaga aactggcagg ttgaacatca acggacctac 
^5901      ^5911      ^5921      ^5931      ^5941      ^5951      ^5961      ^5971      ^5981      ^5991      

tcgcactaag cttgaaccaa gtgtctttca cgatgtgttc gaaggcacta aagagccagc agtgctgact agtaaagacc caaggctgga agttgacttt 
^6001      ^6011      ^6021      ^6031      ^6041      ^6051      ^6061      ^6071      ^6081      ^6091      

gaacaggctc ttttttcaaa atacgtgggg aacacgcttc atgaacccga cgagtttgtc aaggaggcgg ccctacatta tgccaaccaa ctcaagcagt 
^6101      ^6111      ^6121      ^6131      ^6141      ^6151      ^6161      ^6171      ^6181      ^6191      

tagatatcaa gaccaccaag atgagcatgg aggatgcatg ttacggcaca gagaacctgg aagctataga tcttcacaca agtgcaggat atccatacag 
^6201      ^6211      ^6221      ^6231      ^6241      ^6251      ^6261      ^6271      ^6281      ^6291      

tgcactaggc atcaagaaaa aggacatttt ggatccaaca actcgcgatg tcagcaagat gaaattctac atggacaagt atgggttgga tctaccgtac 
^6301      ^6311      ^6321      ^6331      ^6341      ^6351      ^6361      ^6371      ^6381      ^6391      

tctacttatg ttaaagatga acttagggcc atcgacaaga tcaagaaagg gaagtctcgt ctcatagaag cgagcagtct aaatgactca gtgtacttga 
^6401      ^6411      ^6421      ^6431      ^6441      ^6451      ^6461      ^6471      ^6481      ^6491      

gaatgacatt tgggcacctt tatgaagctt tccacgccaa tccaggtaca atcactggtt cagctgttgg gtgcaaccca gatgtgttct ggagcaagtt 
^6501      ^6511      ^6521      ^6531      ^6541      ^6551      ^6561      ^6571      ^6581      ^6591      

accaattcta ctttcaggat cgcttttcgc gtttgactac tcggggtatg acgctagtct cagcccagtg tggttcaggg cgctggagat agtcctgcgg 
^6601      ^6611      ^6621      ^6631      ^6641      ^6651      ^6661      ^6671      ^6681      ^6691      

gaaattggat actccgaaga cgcagtgtct ctcatagaag ggatcaatca cacccatcat gtgtaccgca ataaaactta ttgtgttctt gggggaatgc 
^6701      ^6711      ^6721      ^6731      ^6741      ^6751      ^6761      ^6771      ^6781      ^6791      

cctcaggttg ctcaggcacc tccattttca actcgatgat caacaatatc attattagaa cactcctgat taaaacattc aaagggatag atctaaatga 
^6801      ^6811      ^6821      ^6831      ^6841      ^6851      ^6861      ^6871      ^6881      ^6891      

actgaacatg gtggcctacg gggatgatgt gttggctagt taccccttcc caattgactg tctggagttg gcaagaacag gcaaggagta tggtctaact 
^6901      ^6911      ^6921      ^6931      ^6941      ^6951      ^6961      ^6971      ^6981      ^6991      

atgacccctg ccgacaagtc accctgcttt aatgaggtta cgtgggagaa tgccactttc ttgaagagag gattcttgcc tgattatcaa ttcccgtttc 
^7001      ^7011      ^7021      ^7031      ^7041      ^7051      ^7061      ^7071      ^7081      ^7091      

tcatccaccc tacgatgcca atgagggaga ttcacgaatc cattcgttgg accaaagatg cacgaagtac tcaagatcac gtgcgctccc tctgcttatt 
^7101      ^7111      ^7121      ^7131      ^7141      ^7151      ^7161      ^7171      ^7181      ^7191      

agcatggctc aacgggaaag aggagtatga aaaatttgtg agtgcaatca gatcagttcc aattggaaaa gcattggcta taccaaatta tgagaatctg 
^7201      ^7211      ^7221      ^7231      ^7241      ^7251      ^7261      ^7271      ^7281      ^7291      

aggagaaatt ggctcgaatt gttttaaatt tacagtttgt aactgaaccc caccagtaat ctggtcgtgt taatgactgg tgggggtaaa tttgttataa 
^7301      ^7311      ^7321      ^7331      ^7341      ^7351      ^7361      ^7371      ^7381      ^7391      

ccagaatagc aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa aaaa
^7401      ^7411      ^7421      ^7431      ^7441      ^7451      ^7461

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:

Human enterovirus 71 pinf7-54A

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: Martin Mokrejš	Reviewed by: Martin Mokrejš

The abbreviated name of this ORF/gene:
polyprotein

The description of the protein encoded in this ORF:
viral polyprotein

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):

746-7327

Citations:

Lin JY, Shih SR, Pan M, Li C, Lue CF, Stollar V, Li ML (2009) hnRNP A1 interacts with the 5' untranslated regions of enterovirus 71 and Sindbis virus RNA and is required for viral replication. J. Virol. 83(12):6106-6114

IRESs:

IRES:

Version: `0`
Originaly submitted by: Martin Mokrejš	Reviewed by: Martin Mokrejš
The IRES name: `EV71_1-748`

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

1-748

Conclusion:
strongly_supported_IRES

How IRES boundaries were determined:
experimentally_determined

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

ttaaaacagc ctgtgggttg cacccaccca cagggcccac tgggcgctag cactctggta ctgaggtacc tttgtgcgcc tgtttttact ccccttcccc 
^1         ^11        ^21        ^31        ^41        ^51        ^61        ^71        ^81        ^91        

cgaagtaact tagaagctgt aaatcaacga tcaatagcag gtgtggcaca ccagtcatac cttgatcaag cacttctgtt tccccggact gagtatcaat 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

aggctgctcg cgcggctgaa ggagaaaacg ttcgttaccc gaccaactac ttcgagaagc ttagtaccac catgaacgag gcagggtgtt tcgctcagca 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

caaccccagt gtagatcagg ctgatgagtc actgcaaccc ccatgggcga ccatggcagt ggctgcgttg gcggcctgcc catggagaaa tccatgggac 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

gctctaattc tgacatggtg tgaagagcct attgagctag ctggtagtcc tccggcccct gaatgcggct aatcctaact gcggagcaca tgctcacaaa 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

ccagtgggtg gtgtgtcgta acgggcaact ctgcagcgga accgactact ttgggtgtcc gtgtttcctt ttattcctat attggctgct tatggtgaca 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

atcaaaaagt tgttaccata tagctattgg attggccatc cggtgtgcaa cagggcaatt gtttacctat ttattggttt tgtaccatta tcactgaagt 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

ctgtgatcac tctcaaattc attttgaccc tcaacacaat caaacatg
^701       ^711       ^721       ^731       ^741

Citations:

IRES trans-acting factor (ITAFS):

IRES trans-acting factor (ITAF):

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

Type of the interaction between ITAF and the RNA subject to translation:
direct_interaction_with_rna

ITAF protein characteristics:

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

ITAF abbreviated name:
PTB

ITAF fullname:
polypyrimidine-tract binding protein (unspecified isoform)

ITAF description (long):
polypyrimidine-tract binding protein

3.1.2. Organisms or in vitro systems where this ITAF was functionally studied:

Organism or in vitro system where ITAF was shown:

Necessity of ITAF for translation in this particular organism or system:
unknown

Method used to demonstrate ITAF effect:
in_vitro In vitro system used to demonstrate ITAF effect:
SF268 cell lysate (human glioblastoma)

Citations:

IRES trans-acting factor (ITAF):

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

Type of the interaction between ITAF and the RNA subject to translation:
direct_interaction_with_rna

ITAF protein characteristics:

Version: `0`
Originaly submitted by: Martin Mokrejš	Reviewed by: Václav Vopálenský

ITAF abbreviated name:
Unr

ITAF fullname:
upstream of N-ras

ITAF description (long):
Unr protein is known to bind to gaagaaguaa

3.2.2. Organisms or in vitro systems where this ITAF was functionally studied:

Organism or in vitro system where ITAF was shown:

Necessity of ITAF for translation in this particular organism or system:
unknown

Method used to demonstrate ITAF effect:
in_vitro In vitro system used to demonstrate ITAF effect:
SF268 cell lysate (human glioblastoma)

Citations:

IRES trans-acting factor (ITAF):

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

Type of the interaction between ITAF and the RNA subject to translation:
direct_interaction_with_rna

ITAF protein characteristics:

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

ITAF abbreviated name:
PCBP-1

ITAF fullname:
poly(rC)-binding protein 1

ITAF description (long):
Binds EV71 IRES (Lin et al., 2009)

3.3.2. Organisms or in vitro systems where this ITAF was functionally studied:

Organism or in vitro system where ITAF was shown:

Necessity of ITAF for translation in this particular organism or system:
unknown

Method used to demonstrate ITAF effect:
in_vitro In vitro system used to demonstrate ITAF effect:
SF268 cell lysate (human glioblastoma)

Citations:

IRES trans-acting factor (ITAF):

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

Type of the interaction between ITAF and the RNA subject to translation:
direct_interaction_with_rna

ITAF protein characteristics:

Version: `3`	Last change: `2009-08-30 14:16:52`
Originaly submitted by: Martin Mokrejš	Reviewed by: Martin Mokrejš

ITAF abbreviated name:
PCBP-2

ITAF fullname:
poly(rC)-binding protein 2 (39 kDa)

ITAF description (long):
Required for poliovirus IRES activity (Blyn et al. 1996 and 1997) and replication (Toyoda et al., 2007). Its amount is not limiting in rabbit reticulocyte lysates (RRL) (Hunt and Jackson 1999).

3.4.2. Organisms or in vitro systems where this ITAF was functionally studied:

Organism or in vitro system where ITAF was shown:

Necessity of ITAF for translation in this particular organism or system:
unknown

Method used to demonstrate ITAF effect:
in_vitro In vitro system used to demonstrate ITAF effect:
SF268 cell lysate (human glioblastoma)

Citations:

IRES trans-acting factor (ITAF):

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

Type of the interaction between ITAF and the RNA subject to translation:
direct_interaction_with_rna

OPTIONAL: The interacting RNA base range (if any):
91-167,561-745

ITAF protein characteristics:

Version: `1`	Last change: `2008-06-27 20:14:51`
Originaly submitted by: Martin Mokrejš	Reviewed by: Martin Mokrejš

ITAF abbreviated name:
hnRNP_A1

ITAF fullname:
heterogeneous nuclear ribonucleoprotein A1

ITAF description (long):
heterogeneous nuclear ribonucleoprotein A1 (p37), 37 kDa

3.5.2. Organisms or in vitro systems where this ITAF was functionally studied:

Organism or in vitro system where ITAF was shown:

Necessity of ITAF for translation in this particular organism or system:
unknown

Method used to demonstrate ITAF effect:
in_vivo

The organism where action of this ITAF was studied:

Homo sapiens HeLa (ATCC CCL-2)

Remarks:

It interacts with loops II and VI of the EV71 5'-UTR. It seems to be necessary for efficient viral replication
and stimulates IRES-activity (Figure 3C).

Citations:

IRES trans-acting factor (ITAF):

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

Type of the interaction between ITAF and the RNA subject to translation:
direct_interaction_with_rna

ITAF protein characteristics:

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

ITAF abbreviated name:
FBP2

ITAF fullname:
far upstream element (FUSE) binding protein 2

ITAF description (long):
far upstream element (FUSE) binding protein 2

3.6.2. Organisms or in vitro systems where this ITAF was functionally studied:

Organism or in vitro system where ITAF was shown:

Necessity of ITAF for translation in this particular organism or system:
inhibitory

Method used to demonstrate ITAF effect:
in_vitro In vitro system used to demonstrate ITAF effect:
SF268 cell lysate (human glioblastoma)

Citations:

Lin JY, Li ML, Shih SR (2009) Far upstream element binding protein 2 interacts with enterovirus 71 internal ribosomal entry site and negatively regulates viral translation. Nucleic Acids Res. 37(1):47-59

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