IRESite_Id:473 promoter-less plasmid (deltaCMV)BiCELG1 used to evaluate potential promoter activity in ELG1 IRES

IRESite: The database of experimentally verified IRES structures

The nucleic acid data:

IRESite Id: `473`	Version: `1`
Originaly submitted by: Václav Vopálenský
Reviewed by: Martin Mokrejš	Last change: `2008-07-15 11:43:31`

IRESite record type:

promoter-less_plasmid_with_putative_IRES

The name of the plasmid:
(deltaCMV)BiCELG1

Description of the plasmid (facultative for promoter-less plasmid records):
Part (from nt -803 to nt -461 of the original sequence)of 5' UTR from human ELG1 mRNA has been cloned between the beta galactosidase and chloramphenicol acetyl transferase reporter genes. This promoter-less variant of pBiCELG1 (IRESite ID: 487) was prepared by removing the CMV promoter using NruI and HindIII restriction sites.

The in vivo produced transcripts are heterogeneous (due to any of promoter?/splicing?/cleavage?/breakage?):

not tested

The in vivo produced heterogeneous transcripts occur due to alternative splicing:

not tested

A promoter reported in cDNA corresponding to IRES sequence:

not tested

The origin of IRES in the plasmid:

nuclear

The donor organism of the IRES segment:

Homo sapiens HEK 293T/17 (ATCC CRL-11268)

The abbreviated name of the donor gene or virus from which this IRES was excised and inserted into the plasmid:
ELG1

The DNA sequence of the plasmid in (+) orientation annotated by its secondary structure:

tttttcaata ttattgaagc atttatcagg gttattgtct catgagcgga tacatatttg aatgtattta gaaaaataaa caaatagggg ttccgcgcac 
^1         ^11        ^21        ^31        ^41        ^51        ^61        ^71        ^81        ^91        

atttccccga aaagtgccac ctgacgtcga cggatcggga gatctcccga tcccctatgg tcgactctca gtacaatctg ctctgatgcc gcatagttaa 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

gccagtatct gctccctgct tgtgtgttgg aggtcgctga gtagtgcgcg agcaaaattt aagctacaac aaggcaaggc ttgaccgaca attgcatgaa 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

gaatctgctt agggttaggc gttttgcgct gcttcgagct tggtaccgag ctcggatcca ctagtaacgg ccgccagtgt gctggaattc tgcagatatc 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

catcacactg gcggccgcaa ttcccgggga tcgaaagagc ctgctaaagc aaaaaagaag tcaccATGTC GTTTACTTTG ACCAACAAGA ACGTGATTTT 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

CGTTGCCGGT CTGGGAGGCA TTGGTCTGGA CACCAGCAAG GAGCTGCTCA AGCGCGATCC CGTCGTTTTA CAACGTCGTG ACTGGGAAAA CCCTGGCGTT 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

ACCCAACTTA ATCGCCTTGC AGCACATCCC CCTTTCGCCA GCTGGCGTAA TAGCGAAGAG GCCCGCACCG ATCGCCCTTC CCAACAGTTG CGCAGCTGAA 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

TGGCGAATGG CGCTTTGCCT GGTTTCCGGC ACCAGAAGCG GTGCCGGAAA GCTGGCTGGA GTTCGATCTT CCTGAGGCCG ATACTGTCGT CGTCCCCTCA 
^701       ^711       ^721       ^731       ^741       ^751       ^761       ^771       ^781       ^791       

AACTGGCAGA TGCACGGTTA CGATGCGCCC ATCTACACCA ACGTGACCTA TCCCATTACG GTCAATCCGC CGTTTGTTCC CACGGAGAAT CCGACGGGTT 
^801       ^811       ^821       ^831       ^841       ^851       ^861       ^871       ^881       ^891       

GTTACTCGCT CACATTTAAT GTTGATGAAA GCTGGCTACA GGAAGGCCAG ACGCGAATTA TTTTTGATGG CGTTAACTCG GCGTTTCATC TGTGGTGCAA 
^901       ^911       ^921       ^931       ^941       ^951       ^961       ^971       ^981       ^991       

CGGGCGCTGG GTCGGTTACG GCCAGGACAG TCGTTTGCCG TCTGAATTTG ACCTGAGCGC ATTTTTACGC GCCGGAGAAA ACCGCCTCGC GGTGATGGTG 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

CTGCGTTGGA GTTACGGCAG TTATCTGGAA GATCAGGATA TTTGGCGGAT GAGCGGCATT TTCCGTGACG TCTCGTTGCT GCATAAACCG ACTACACAAA 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

TCAGCGATTT CCATGTTGCC ACTCGCTTTA ATGATGATTT CAGCCGCGCT GTACTGGAGG CTGAAGTTCA GATGTGCGGC GAGTTGCGTG ACTACCTACG 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

GGTAACAGTT TCTTTATGGC AGGGTGAAAC GCAGGTCGCC AGCGGCACCG CGCCTTTCGG CGGTGAAATT ATCGATGAGC GTGGTGGTTA TGCCGATCGC 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

GTCACACTAC GTCTGAACGT CGAAAACCCG AAACTGTGGA GCGCCGAAAT CCCGAATCTC TATCGTGCGG TGGTTGAACT GCACACCGCC GACGGCACGC 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

TGATTGAAGC AGAAGCCTGC GATGTCGGTT TCCGCGAGGT GCGGATTGAA AATGGTCTGC TGCTGCTGAA CGGCAAGCCG TTGCTGATTC GAGGCGTTAA 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

CCGTCACGAG CATCATCCTC TGCATGGTCA GGTCATGGAT GAGCAGACGA TGGTGCAGGA TATCCTGCTG ATGAAGCAGA ACAACTTTAA CGCCGTGCGC 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

TGTTCGCATT ATCCGAACCA TCCGCTGTGG TACACGCTGT GCGACCGCTA CGGCCTGTAT GTGGTGGATG AAGCCAATAT TGAAACCCAC GGCATGGTGC 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

CAATGAATCG TCTGACCGAT GATCCGCGCT GGCTACCGGC GATGAGCGAA CGCGTAACGC GAATGGTGCA GCGCGATCGT AATCACCCGA GTGTGATCAT 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

CTGGTCGCTG GGGAATGAAT CAGGCCACGG CGCTAATCAC GACGCGCTGT ATCGCTGGAT CAAATCTGTC GATCCTTCCC GCCCGGTGCA GTATGAAGGC 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

GGCGGAGCCG ACACCACGGC CACCGATATT ATTTGCCCGA TGTACGCGCG CGTGGATGAA GACCAGCCCT TCCCGGCTGT GCCGAAATGG TCCATCAAAA 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

AATGGCTTTC GCTACCTGGA GAGACGCGCC CGCTGATCCT TTGCGAATAC GCCCACGCGA TGGGTAACAG TCTTGGCGGT TTCGCTAAAT ACTGGCAGGC 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

GTTTCGTCAG TATCCCCGTT TACAGGGCGG CTTCGTCTGG GACTGGGTGG ATCAGTCGCT GATTAAATAT GATGAAAACG GCAACCCGTG GTCGGCTTAC 
^2201      ^2211      ^2221      ^2231      ^2241      ^2251      ^2261      ^2271      ^2281      ^2291      

GGCGGTGATT TTGGCGATAC GCCGAACGAT CGCCAGTTCT GTATGAACGG TCTGGTCTTT GCCGACCGCA CGCCGCATCC AGCGCTGACG GAAGCAAAAC 
^2301      ^2311      ^2321      ^2331      ^2341      ^2351      ^2361      ^2371      ^2381      ^2391      

ACCAGCAGCA GTTTTTCCAG TTCCGTTTAT CCGGGCAAAC CATCGAAGTG ACCAGCGAAT ACCTGTTCCG TCATAGCGAT AACGAGCTCC TGCACTGGAT 
^2401      ^2411      ^2421      ^2431      ^2441      ^2451      ^2461      ^2471      ^2481      ^2491      

GGTGGCGCTG GATGGTAAGC CGCTGGCAAG CGGTGAAGTG CCTCTGGATG TCGCTCCACA AGGTAAACAG TTGATTGAAC TGCCTGAACT ACCGCAGCCG 
^2501      ^2511      ^2521      ^2531      ^2541      ^2551      ^2561      ^2571      ^2581      ^2591      

GAGAGCGCCG GGCAACTCTG GCTCACAGTA CGCGTAGTGC AACCGAACGC GACCGCATGG TCAGAAGCCG GGCACATCAG CGCCTGGCAG CAGTGGCGTC 
^2601      ^2611      ^2621      ^2631      ^2641      ^2651      ^2661      ^2671      ^2681      ^2691      

TGGCGGAAAA CCTCAGTGTG ACGCTCCCCG CCGCGTCCCA CGCCATCCCG CATCTGACCA CCAGCGAAAT GGATTTTTGC ATCGAGCTGG GTAATAAGCG 
^2701      ^2711      ^2721      ^2731      ^2741      ^2751      ^2761      ^2771      ^2781      ^2791      

TTGGCAATTT AACCGCCAGT CAGGCTTTCT TTCACAGATG TGGATTGGCG ATAAAAAACA ACTGCTGACG CCGCTGCGCG ATCAGTTCAC CCGTGCACCG 
^2801      ^2811      ^2821      ^2831      ^2841      ^2851      ^2861      ^2871      ^2881      ^2891      

CTGGATAACG ACATTGGCGT AAGTGAAGCG ACCCGCATTG ACCCTAACGC CTGGGTCGAA CGCTGGAAGG CGGCGGGCCA TTACCAGGCC GAAGCAGCGT 
^2901      ^2911      ^2921      ^2931      ^2941      ^2951      ^2961      ^2971      ^2981      ^2991      

TGTTGCAGTG CACGGCAGAT ACACTTGCTG ATGCGGTGCT GATTACGAAC GCTCACGCGT GGCAGCATCA GGGGAAAACC TTATTTATCA GCCGGAAAAC 
^3001      ^3011      ^3021      ^3031      ^3041      ^3051      ^3061      ^3071      ^3081      ^3091      

CTACCGGATT GATGGTAGTG GTCAAATGGC GATTACCGTT GATGTTGAAG TGGCGAGCGA TACACCGCAT CCGGCGCGGA TTGGCCTGAA CTGCCAGCTG 
^3101      ^3111      ^3121      ^3131      ^3141      ^3151      ^3161      ^3171      ^3181      ^3191      

GCGCAGGTAG CAGAGCGGGT AAACTGGCTC GGATTAGGGC CGCAAGAAAA CTATCCCGAC CGCCTTACTG CCGCCTGTTT TGACCGCTGG GATCTGCCAT 
^3201      ^3211      ^3221      ^3231      ^3241      ^3251      ^3261      ^3271      ^3281      ^3291      

TGTCAGACAT GTATACCCCG TACGTCTTCC CGAGCGAAAA CGGTCTGCGC TGCGGGACGC GCGAATTGAA TTATGGCCCA CACCAGTGGC GCGGCGACTT 
^3301      ^3311      ^3321      ^3331      ^3341      ^3351      ^3361      ^3371      ^3381      ^3391      

CCAGTTCAAC ATCAGCCGCT ACAGTCAACA GCAACTGATG GAAACCAGCC ATCGCCATCT GCTGCACGCG GAAGAAGGCA CATGGCTGAA TATCGACGGT 
^3401      ^3411      ^3421      ^3431      ^3441      ^3451      ^3461      ^3471      ^3481      ^3491      

TTCCATATGG GGATTGGTGG CGACGACTCC TGGAGCCCGT CAGTATCGGC GGAATTACAG CTGAGCGCCG GTCGCTACCA TTACCAGTTG GTCTGGTGTC 
^3501      ^3511      ^3521      ^3531      ^3541      ^3551      ^3561      ^3571      ^3581      ^3591      

AAAAATAATA ATAACCGGGC AGGCCATGTC TGCCCGTATT TCGCGTAAGG AAATCCATTA TGTACTATTT AAAAAACACA AACTTTTGGA TGTTCGGTTT 
^3601      ^3611      ^3621      ^3631      ^3641      ^3651      ^3661      ^3671      ^3681      ^3691      

ATTCTTTTTC TTTTACTTTT TTATCATGGG AGCCTACTTC CCGTTTTTCC CGATTTGGCT ACATGACATC AACCATATCA GCAAAAGTGA TACGGGTATT 
^3701      ^3711      ^3721      ^3731      ^3741      ^3751      ^3761      ^3771      ^3781      ^3791      

ATTTTTGCCG CTATTTCTCT GTTCTCGCTA TTATTCCAAC CGCTGTTTGG TCTGCTTTCT GACAAACTCG GCCTCGACTC TAGGCGGCCG CTCGACGCTA 
^3801      ^3811      ^3821      ^3831      ^3841      ^3851      ^3861      ^3871      ^3881      ^3891      

GCACTTTTGG TGGGCATTTA AAAATGTGTG TGTATGTGTA TATATGTATG TGTATGTATG TGTATATATG TATATGTATG TATGTATCGC GTGTATGTGT 
^3901      ^3911      ^3921      ^3931      ^3941      ^3951      ^3961      ^3971      ^3981      ^3991      

GTATGTATGC ATGTGTATGT ATGTATATGC ATGTATGTGT ATGTGTATAT ATGTATGTGT GTGTATGTAT ATGTGTGTGT ATGTGTATGT GTGTGTGTAT 
^4001      ^4011      ^4021      ^4031      ^4041      ^4051      ^4061      ^4071      ^4081      ^4091      

GTGTGTGTGT ATGTATGTAT GTATGTATAT GTATTATACA CATATACACA TATTGGTTTT TTTAATCATT TGAGAGTTAG TTGAAGATAA AAACCCATCA 
^4101      ^4111      ^4121      ^4131      ^4141      ^4151      ^4161      ^4171      ^4181      ^4191      

CCCCTAAATG TATTCCAAAG AATAAGAACA TTGTTTTATA CATAGCACAC TTAACAAAAT CAAGAAATTT AACATTAATA CAGTACTGTT ACCTAATCCG 
^4201      ^4211      ^4221      ^4231      ^4241      ^4251      ^4261      ^4271      ^4281      ^4291      

TAGTCGATTT TCAAATTTTG TCAGTTGTTC CAATAATGTC CTTTATATAT TCCCCGCCCA GCTCGAGatg gagaaaaaaa tcactggata taccaccgtt 
^4301      ^4311      ^4321      ^4331      ^4341      ^4351      ^4361      ^4371      ^4381      ^4391      

gatatatccc aatggcatcg taaagaacat tttgaggcat ttcagtcagt tgctcaatgt acctataacc agaccgttca gctggatatt acggcctttt 
^4401      ^4411      ^4421      ^4431      ^4441      ^4451      ^4461      ^4471      ^4481      ^4491      

taaagaccgt aaagaaaaat aagcacaagt tttatccggc ctttattcac attcttgccc gcctgatgaa tgctcatccg gaattccgta tggcaatgaa 
^4501      ^4511      ^4521      ^4531      ^4541      ^4551      ^4561      ^4571      ^4581      ^4591      

agacggtgag ctggtgatat gggatagtgt tcacccttgt tacaccgttt tccatgagca aactgaaacg ttttcatcgc tctggagtga ataccacgac 
^4601      ^4611      ^4621      ^4631      ^4641      ^4651      ^4661      ^4671      ^4681      ^4691      

gatttccggc agtttctaca catatattcg caagatgtgg cgtgttacgg tgaaaacctg gcctatttcc ctaaagggtt tattgagaat atgtttttcg 
^4701      ^4711      ^4721      ^4731      ^4741      ^4751      ^4761      ^4771      ^4781      ^4791      

tctcagccaa tccctgggtg agtttcacca gttttgattt aaacgtggcc aatatggaca acttcttcgc ccccgttttc accatgggca aatattatac 
^4801      ^4811      ^4821      ^4831      ^4841      ^4851      ^4861      ^4871      ^4881      ^4891      

gcaaggcgac aaggtgctga tgccgctggc gattcaggtt catcatgccg tctgtgatgg cttccatgtc ggcagaatgc ttaatgaatt acaacagtac 
^4901      ^4911      ^4921      ^4931      ^4941      ^4951      ^4961      ^4971      ^4981      ^4991      

tgcgatgagt ggcagggcgg ggcgtaaTTT TTTTAAGGCA GTTATTGGTG CCCTTAAACG CCTGGTTCTA CGCCTGAATA AGTGATAATA AGCGGATGAA 
^5001      ^5011      ^5021      ^5031      ^5041      ^5051      ^5061      ^5071      ^5081      ^5091      

TGGCAGAAAT TCGCCGgatc tttgtgaagg aaccttactt ctgtggtgtg acataattgg acaaactacc tacagagatt taaagctcta aggtaaatat 
^5101      ^5111      ^5121      ^5131      ^5141      ^5151      ^5161      ^5171      ^5181      ^5191      

aaaattttta agtgtataat gtgttaaact actgattcta attgtttgtg tattttagat tccaacctat ggaactgatg aatgggagca gtggtggaat 
^5201      ^5211      ^5221      ^5231      ^5241      ^5251      ^5261      ^5271      ^5281      ^5291      

gcctttaatg aggaaaacct gttttgctca gaagaaatgc catctagtga tgatgaggct actgctgact ctcaacattc tactcctcca aaaaagaaga 
^5301      ^5311      ^5321      ^5331      ^5341      ^5351      ^5361      ^5371      ^5381      ^5391      

gaaaggtaga agaccccaag gactttcctt cagaattgct aagttttttg agtcatgctg tgtttagtaa tagaactctt gcttgctttg ctatttacac 
^5401      ^5411      ^5421      ^5431      ^5441      ^5451      ^5461      ^5471      ^5481      ^5491      

cacaaaggaa aaagctgcac tgctatacaa gaaaattatg gaaaaatatt ctgtaacctt tataagtagg cataacagtt ataatcataa catactgttt 
^5501      ^5511      ^5521      ^5531      ^5541      ^5551      ^5561      ^5571      ^5581      ^5591      

tttcttactc cacacaggca tagagtgtct gctattaata actatgctca aaaattgtgt acctttagct ttttaatttg taaaggggtt aataaggaat 
^5601      ^5611      ^5621      ^5631      ^5641      ^5651      ^5661      ^5671      ^5681      ^5691      

atttgatgta tagtgccttg actagagatc ataatcagcc ataccacatt tgtagaggtt ttacttgctt taaaaaacct cccacacctc cccctgaacc 
^5701      ^5711      ^5721      ^5731      ^5741      ^5751      ^5761      ^5771      ^5781      ^5791      

tgaaacataa aatgaatgca attgttgttg ttaacttgtt tattgcagct tataatggtt acaaataaag caatagcatc acaaatttca caaataaagc 
^5801      ^5811      ^5821      ^5831      ^5841      ^5851      ^5861      ^5871      ^5881      ^5891      

atttttttca ctgcattcta gttgtggttt gtccaaactc atcaatgtat cttatcatgt ctgTCCTAGA GGGCCCTATT ctatagtgtc acctaaatgc 
^5901      ^5911      ^5921      ^5931      ^5941      ^5951      ^5961      ^5971      ^5981      ^5991      

tagagctcgc tgatcagcct cgactgtgcc ttctagttgc cagccatctg ttgtttgccc ctcccccgtg ccttccttga ccctggaagg tgccactccc 
^6001      ^6011      ^6021      ^6031      ^6041      ^6051      ^6061      ^6071      ^6081      ^6091      

actgtccttt cctaataaaa tgaggaaatt gcatcgcatt gtctgagtag gtgtcattct attctggggg gtggggtggg gcaggacagc aagggggagg 
^6101      ^6111      ^6121      ^6131      ^6141      ^6151      ^6161      ^6171      ^6181      ^6191      

attgggaaga caatagcagg catgctgggg atgcggTGGG CTCTATGGCT TCTGAGGCGG AAAGAACCAG CTGGGGCTCT AGGGGGTATC CCCACGCGCC 
^6201      ^6211      ^6221      ^6231      ^6241      ^6251      ^6261      ^6271      ^6281      ^6291      

CTGTAGCGGC gcattaagcg cggcgggtgt ggtggttacg cgcagcgtga ccgctacact tgccagcgcc ctagcgcccg ctcctttcgc tttcttccct 
^6301      ^6311      ^6321      ^6331      ^6341      ^6351      ^6361      ^6371      ^6381      ^6391      

tcctttctcg ccacgttcgc cggctttccc cgtcaagctc taaatcgggg catcccttta gggttccgat ttagtgcttt acggcacctc gaccccaaaa 
^6401      ^6411      ^6421      ^6431      ^6441      ^6451      ^6461      ^6471      ^6481      ^6491      

aacttgatta gggtgatggt tcacgtagtg ggccatcgcc ctgatagacg gtttttcgcc ctttgacgtt ggagtccacg ttctttaata gtggactctt 
^6501      ^6511      ^6521      ^6531      ^6541      ^6551      ^6561      ^6571      ^6581      ^6591      

gttccaaact ggaacaaCAC TCAACCCTAT CTCGGTCTAT TCTTTTGATT TATAAGGGAT TTTGGGGATT TCGGCCTATT GGTTAAAAAA TGAGCTGATT 
^6601      ^6611      ^6621      ^6631      ^6641      ^6651      ^6661      ^6671      ^6681      ^6691      

TAACAAAAAT TTAACGCGAA TTAATTCTGT GGAATGTGTG TCAGTTAGGG TGTGGAAAGT CCCCAGGCTC Cccaggcagg cagaagtatg caaagcatgc 
^6701      ^6711      ^6721      ^6731      ^6741      ^6751      ^6761      ^6771      ^6781      ^6791      

atctcaatta gtcagcaacc aggtgtggaa agtccccagg ctccccagca ggcagaagta tgcaaagcat gcatctcaat tagtcagcaa ccatagtccc 
^6801      ^6811      ^6821      ^6831      ^6841      ^6851      ^6861      ^6871      ^6881      ^6891      

gcccctaact ccgcccatcc cgcccctaac tccgcccagt tccgcccatt ctccgcccca tggctgacta atttttttta tttatgcaga ggccgaggcc 
^6901      ^6911      ^6921      ^6931      ^6941      ^6951      ^6961      ^6971      ^6981      ^6991      

gcctctgcct ctgagctatt ccagaagtag tgaggaggct tttttggagg cctaggcttt tgcaaaaagc tcccgggagc ttgtatatcc attttcggAT 
^7001      ^7011      ^7021      ^7031      ^7041      ^7051      ^7061      ^7071      ^7081      ^7091      

CTGATCAAGA GACAGGATGA GGATCGTTTC GCatgattga acaagatgga ttgcacgcag gttctccggc cgcttgggtg gagaggctat tcggctatga 
^7101      ^7111      ^7121      ^7131      ^7141      ^7151      ^7161      ^7171      ^7181      ^7191      

ctgggcacaa cagacaatcg gctgctctga tgccgccgtg ttccggctgt cagcgcaggg gcgcccggtt ctttttgtca agaccgacct gtccggtgcc 
^7201      ^7211      ^7221      ^7231      ^7241      ^7251      ^7261      ^7271      ^7281      ^7291      

ctgaatgaac tgcaggacga ggcagcgcgg ctatcgtggc tggccacgac gggcgttcct tgcgcagctg tgctcgacgt tgtcactgaa gcgggaaggg 
^7301      ^7311      ^7321      ^7331      ^7341      ^7351      ^7361      ^7371      ^7381      ^7391      

actggctgct attgggcgaa gtgccggggc aggatctcct gtcatctcac cttgctcctg ccgagaaagt atccatcatg gctgatgcaa tgcggcggct 
^7401      ^7411      ^7421      ^7431      ^7441      ^7451      ^7461      ^7471      ^7481      ^7491      

gcatacgctt gatccggcta cctgcccatt cgaccaccaa gcgaaacatc gcatcgagcg agcacgtact cggatggaag ccggtcttgt cgatcaggat 
^7501      ^7511      ^7521      ^7531      ^7541      ^7551      ^7561      ^7571      ^7581      ^7591      

gatctggacg aagagcatca ggggctcgcg ccagccgaac tgttcgccag gctcaaggcg cgcatgcccg acggcgagga tctcgtcgtg acccatggcg 
^7601      ^7611      ^7621      ^7631      ^7641      ^7651      ^7661      ^7671      ^7681      ^7691      

atgcctgctt gccgaatatc atggtggaaa atggccgctt ttctggattc atcgactgtg gccggctggg tgtggcggac cgctatcagg acatagcgtt 
^7701      ^7711      ^7721      ^7731      ^7741      ^7751      ^7761      ^7771      ^7781      ^7791      

ggctacccgt gatattgctg aagagcttgg cggcgaatgg gctgaccgct tcctcgtgct ttacggtatc gccgctcccg attcgcagcg catcgccttc 
^7801      ^7811      ^7821      ^7831      ^7841      ^7851      ^7861      ^7871      ^7881      ^7891      

tatcgccttc ttgacgagtt cttctgagcg GGACTCTGGG GTTCGAAATG ACCGACCAAG CGACGCCCAA CCTGCCATCA CGAGATTTCG ATTCCACCGC 
^7901      ^7911      ^7921      ^7931      ^7941      ^7951      ^7961      ^7971      ^7981      ^7991      

CGCCTTCTAT GAAAGGTTGG GCTTCGGAAT CGTTTTCCGG GACGCCGGCT GGATGATCCT CCAGCGCGGG GATCTCATGC TGGAGTTCTT CGCCCACCCC 
^8001      ^8011      ^8021      ^8031      ^8041      ^8051      ^8061      ^8071      ^8081      ^8091      

Aacttgttta ttgcagctta taatggttac aaataaagca atagcatcac aaatttcaca aataaagcat ttttttcact gcattctagt tgtggtttgt 
^8101      ^8111      ^8121      ^8131      ^8141      ^8151      ^8161      ^8171      ^8181      ^8191      

ccaaactcat caatgtatct tatcatgtct gtataccgtc gacctctagc tagagcttgg cgtaatcatg gtcatagctg tttcctgtgt gaaattgtta 
^8201      ^8211      ^8221      ^8231      ^8241      ^8251      ^8261      ^8271      ^8281      ^8291      

tccgctcaca attccacaca ACATACGAGC CGGAAGCATA AAGTGTAAAG CCTGGGGTGC CTAATGAGTG AGCTAACTCA CATTAATTGC GTTGCGCTCA 
^8301      ^8311      ^8321      ^8331      ^8341      ^8351      ^8361      ^8371      ^8381      ^8391      

CTGCCCGCTT TCCAGTCGGG AAACCTGTCG TGCCAGCTGC ATTAATGAAT CGGCCAACGC GCGGGGAGAG GCGGTTTGCG TATTGGGCGC TCTTCCGCTT 
^8401      ^8411      ^8421      ^8431      ^8441      ^8451      ^8461      ^8471      ^8481      ^8491      

CCTCGCTCAC TGACTCGCTG CGCTCGGTCG TTCGGCTGCG GCGAGCGGTA TCAGCTCACT CAAAGGCGGT AATACGGTTA TCCACAGAAT CAGGGGATAA 
^8501      ^8511      ^8521      ^8531      ^8541      ^8551      ^8561      ^8571      ^8581      ^8591      

CGCAGGAAAG AACATGTGAG CAAAAGGCCA GCAAAAGGCC AGGAACCGTA AAAAggccgc gttgctggcg tttttccata ggctccgccc ccctgacgag 
^8601      ^8611      ^8621      ^8631      ^8641      ^8651      ^8661      ^8671      ^8681      ^8691      

catcacaaaa atcgacgctc aagtcagagg tggcgaaacc cgacaggact ataaagatac caggcgtttc cccctggaag ctccctcgtg cgctctcctg 
^8701      ^8711      ^8721      ^8731      ^8741      ^8751      ^8761      ^8771      ^8781      ^8791      

ttccgaccct gccgcttacc ggatacctgt ccgcctttct cccttcggga agcgtggcgc tttctcaatg ctcacgctgt aggtatctca gttcggtgta 
^8801      ^8811      ^8821      ^8831      ^8841      ^8851      ^8861      ^8871      ^8881      ^8891      

ggtcgttcgc tccaagctgg gctgtgtgca cgaacccccc gttcagcccg accgctgcgc cttatccggt aactatcgtc ttgagtccaa cccggtaaga 
^8901      ^8911      ^8921      ^8931      ^8941      ^8951      ^8961      ^8971      ^8981      ^8991      

cacgacttat cgccactggc agcagccact ggtaacagga ttagcagagc gaggtatgta ggcggtgcta cagagttctt gaagtggtgg cctaactacg 
^9001      ^9011      ^9021      ^9031      ^9041      ^9051      ^9061      ^9071      ^9081      ^9091      

gctacactag aaggacagta tttggtatct gcgctctgct gaagccagtt accttcggaa aaagagttgg tagctcttga tccggcaaac aaaccaccgc 
^9101      ^9111      ^9121      ^9131      ^9141      ^9151      ^9161      ^9171      ^9181      ^9191      

tggtagcggt ggtttttttg tttgcaagca gcagattacg cgcagaaaaa aaggatctca agaagatcct ttgatctttt ctacggggtc tgacgctcag 
^9201      ^9211      ^9221      ^9231      ^9241      ^9251      ^9261      ^9271      ^9281      ^9291      

tggaacgaaa actcacgtta agggattttg gtcatgagat tatcaaaaag gatcttcacc tagatccttt taaattaaaa atgaagtttt aaatcaatct 
^9301      ^9311      ^9321      ^9331      ^9341      ^9351      ^9361      ^9371      ^9381      ^9391      

aaagtatata tgagtaaact tggtctgaca gttaccaatg cttaatcagt gaggcaccta tctcagcgat ctgtctattt cgttcatcca tagttgcctg 
^9401      ^9411      ^9421      ^9431      ^9441      ^9451      ^9461      ^9471      ^9481      ^9491      

actccccgtc gtgtagataa ctacgatacg ggagggctta ccatctggcc ccagtgctgc aatgataccg cgagacccac gctcaccggc tccagattta 
^9501      ^9511      ^9521      ^9531      ^9541      ^9551      ^9561      ^9571      ^9581      ^9591      

tcagcaataa accagccagc cggaagggcc gagcgcagaa gtggtcctgc aactttatcc gcctccatcc agtctattaa ttgttgccgg gaagctagag 
^9601      ^9611      ^9621      ^9631      ^9641      ^9651      ^9661      ^9671      ^9681      ^9691      

taagtagttc gccagttaat agtttgcgca acgttgttgc cattgctaca ggcatcgtgg tgtcacgctc gtcgtttggt atggcttcat tcagctccgg 
^9701      ^9711      ^9721      ^9731      ^9741      ^9751      ^9761      ^9771      ^9781      ^9791      

ttcccaacga tcaaggcgag ttacatgatc ccccatgttg tgcaaaaaag cggttagctc cttcggtcct ccgatcgttg tcagaagtaa gttggccgca 
^9801      ^9811      ^9821      ^9831      ^9841      ^9851      ^9861      ^9871      ^9881      ^9891      

gtgttatcac tcatggttat ggcagcactg cataattctc ttactgtcat gccatccgta agatgctttt ctgtgactgg tgagtactca accaagtcat 
^9901      ^9911      ^9921      ^9931      ^9941      ^9951      ^9961      ^9971      ^9981      ^9991      

tctgagaata gtgtatgcgg cgaccgagtt gctcttgccc ggcgtcaata cgggataata ccgcgccaca tagcagaact ttaaaagtgc tcatcattgg 
^10001     ^10011     ^10021     ^10031     ^10041     ^10051     ^10061     ^10071     ^10081     ^10091     

aaaacgttct tcggggcgaa aactctcaag gatcttaccg ctgttgagat ccagttcgat gtaacccact cgtgcaccca actgatcttc agcatctttt 
^10101     ^10111     ^10121     ^10131     ^10141     ^10151     ^10161     ^10171     ^10181     ^10191     

actttcacca gcgtttctgg gtgagcaaaa acaggaaggc aaaatgccgc aaaaaaggga ataagggcga cacggaaatg ttgaatactc atactcttcc
^10201     ^10211     ^10221     ^10231     ^10241     ^10251     ^10261     ^10271     ^10281     ^10291

GenBank formatted file with annotated plasmid sequence hyperlinked from vector image map:

The total number of notable open-reading frames (ORFs):

2

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

ORF

ORF position:

1

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

The abbreviated name of this ORF/gene:
LacZ

The description of the protein encoded in this ORF:
beta galactosidase

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):

810-3608

ORF

ORF position:

2

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

The abbreviated name of this ORF/gene:
CAT

The description of the protein encoded in this ORF:
chloramphenicol acetyl transferase

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):

4368-5027

Remarks:

Tested ELG1 5' UTR sequence contains 35 AUG repeats.

The plasmid was used as the negative control for experiments in article A search for structurally similar
cellular internal ribosome entry sites (Baird et al., 2007; PMID:17591613).

Citations:

Baird S. D., Lewis S. M., Turcotte M., Holcik M. (2007) A search for structurally similar cellular internal ribosome entry sites. Nucleic. Acids. Res. 35(14):4664-4677

IRESs:

IRES:

Version: `1`	Last change: `2008-07-15 10:35:54`
Originaly submitted by: Václav Vopálenský	Reviewed by: Martin Mokrejš
The IRES name: `ELG1`	The functional status of IRES: `functional`

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

3903-4362

How IRES boundaries were determined:
experimentally_determined

5'-end of IRES relative to last base of the STOP codon of the upstream ORF: `295`	3'-end of IRES relative to last base of the STOP codon of the upstream ORF: `754`
5'-end of IRES relative to first base of the START codon of the downstream ORF: `-465`	3'-end of IRES relative to first base of the START codon of the downstream ORF: `-6`

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

ACTTTTGGTG GGCATTTAAA AATGTGTGTG TATGTGTATA TATGTATGTG TATGTATGTG TATATATGTA TATGTATGTA TGTATCGCGT GTATGTGTGT 
^3903      ^3913      ^3923      ^3933      ^3943      ^3953      ^3963      ^3973      ^3983      ^3993      

ATGTATGCAT GTGTATGTAT GTATATGCAT GTATGTGTAT GTGTATATAT GTATGTGTGT GTATGTATAT GTGTGTGTAT GTGTATGTGT GTGTGTATGT 
^4003      ^4013      ^4023      ^4033      ^4043      ^4053      ^4063      ^4073      ^4083      ^4093      

GTGTGTGTAT GTATGTATGT ATGTATATGT ATTATACACA TATACACATA TTGGTTTTTT TAATCATTTG AGAGTTAGTT GAAGATAAAA ACCCATCACC 
^4103      ^4113      ^4123      ^4133      ^4143      ^4153      ^4163      ^4173      ^4183      ^4193      

CCTAAATGTA TTCCAAAGAA TAAGAACATT GTTTTATACA TAGCACACTT AACAAAATCA AGAAATTTAA CATTAATACA GTACTGTTAC CTAATCCGTA 
^4203      ^4213      ^4223      ^4233      ^4243      ^4253      ^4263      ^4273      ^4283      ^4293      

GTCGATTTTC AAATTTTGTC AGTTGTTCCA ATAATGTCCT TTATATATTC CCCGCCCAGC
^4303      ^4313      ^4323      ^4333      ^4343      ^4353

Remarks:

ELG1 IRES represents part (from nt -803 to nt -461 of the original sequence) of 5' UTR from human ELG1 mRNA.

Citations:

Baird S. D., Lewis S. M., Turcotte M., Holcik M. (2007) A search for structurally similar cellular internal ribosome entry sites. Nucleic. Acids. Res. 35(14):4664-4677

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