IRESite_Id:582 characteristics of EMCV-R_245-832 IRES studied in pIRES-lacZ plasmid

IRESite: The database of experimentally verified IRES structures

The nucleic acid data:

IRESite Id: `582`	Version: `2`
Originaly submitted by: Martin Mokrejš	Submission date: `2009-04-10 22:57:57`
Reviewed by: Martin Mokrejš	Last change: `2009-04-15 13:36:06`

IRESite record type:

plasmid_with_promoter_and_putative_IRES_without_translational_characterization

The shape of the nucleic acid molecule translated:
linear The quality of the mRNA/+RNA sequence:
our_best_guess

The mRNA/+RNA description:

Incomplete T3 promoter driven monocistronic transcript of pIRES-lacZ plasmid preceded by EMCV-R IRES.

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

gggaacaaaa gctggagctc caccgcggtg gcggccgctc tagaactagt ggatcctcta gagaattccg cccccccccc ccccccccct ctccctcccc 
^1         ^11        ^21        ^31        ^41        ^51        ^61        ^71        ^81        ^91        

cccccctaac gttactggcc gaagccgctt ggaataaggc cggtgtgcgt ttgtctatat gttattttcc accatattgc cgtcttttgg caatgtgagg 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

gcccggaaac ctggccctgt cttcttgacg agcattccta ggggtctttc ccctctcgcc aaaggaatgc aaggtctgtt gaatgtcgtg aaggaagcag 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

ttcctctgga agcttcttga agacaaacaa cgtctgtagc gaccctttgc aggcagcgga accccccacc tggcgacagg tgcctctgcg gccaaaagcc 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

acgtgtataa gatacacctg caaaggcggc acaaccccag tgccacgttg tgagttggat agttgtggaa agagtcaaat ggctctcctc aagcgtattc 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

aacaaggggc tgaaggatgc ccagaaggta ccccattgta tgggatctga tctggggcct cggtgcacat gctttacatg tgtttagtcg aggttaaaaa 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

acgtctaggc cccccgaacc acggggacgt ggttttcctt tgaaaaacac gatgataagc ttgccacaac catggaagat cccgtcgttt tacaacgtcg 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

tgactgggaa aaccctggcg ttacccaact taatcgcctt gcagcacatc cccctttcgc cagctggcgt aatagcgaag aggcccgcac cgatcgccct 
^701       ^711       ^721       ^731       ^741       ^751       ^761       ^771       ^781       ^791       

tcccaacagt tgcgcagcct gaatggcgaa tggcgctttg cctggtttcc ggcaccagaa gcggtgccgg aaagctggct ggagtgcgat cttcctgagg 
^801       ^811       ^821       ^831       ^841       ^851       ^861       ^871       ^881       ^891       

ccgatactgt cgtcgtcccc tcaaactggc agatgcacgg ttacgatgcg cccatctaca ccaacgtaac ctatcccatt acggtcaatc cgccgtttgt 
^901       ^911       ^921       ^931       ^941       ^951       ^961       ^971       ^981       ^991       

tcccacggag aatccgacgg gttgttactc gctcacattt aatgttgatg aaagctggct acaggaaggc cagacgcgaa ttatttttga tggcgttaac 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

tcggcgtttc atctgtggtg caacgggcgc tgggtcggtt acggccagga cagtcgtttg ccgtctgaat ttgacctgag cgcattttta cgcgccggag 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

aaaaccgcct cgcggtgatg gtgctgcgtt ggagtgacgg cagttatctg gaagatcagg atatgtggcg gatgagcggc attttccgtg acgtctcgtt 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

gctgcataaa ccgactacac aaatcagcga tttccatgtt gccactcgct ttaatgatga tttcagccgc gctgtactgg aggctgaagt tcagatgtgc 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

ggcgagttgc gtgactacct acgggtaaca gtttctttat ggcagggtga aacgcaggtc gccagcggca ccgcgccttt cggcggtgaa attatcgatg 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

agcgtggtgg ttatgccgat cgcgtcacac tacgtctgaa cgtcgaaaac ccgaaactgt ggagcgccga aatcccgaat ctctatcgtg cggtggttga 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

actgcacacc gccgacggca cgctgattga agcagaagcc tgcgatgtcg gtttccgcga ggtgcggatt gaaaatggtc tgctgctgct gaacggcaag 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

ccgttgctga ttcgaggcgt taaccgtcac gagcatcatc ctctgcatgg tcaggtcatg gatgagcaga cgatggtgca ggatatcctg ctgatgaagc 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

agaacaactt taacgccgtg cgctgttcgc attatccgaa ccatccgctg tggtacacgc tgtgcgaccg ctacggcctg tatgtggtgg atgaagccaa 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

tattgaaacc cacggcatgg tgccaatgaa tcgtctgacc gatgatccgc gctggctacc ggcgatgagc gaacgcgtaa cgcgaatggt gcagcgcgat 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

cgtaatcacc cgagtgtgat catctggtcg ctggggaatg aatcaggcca cggcgctaat cacgacgcgc tgtatcgctg gatcaaatct gtcgatcctt 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

cccgcccggt gcagtatgaa ggcggcggag ccgacaccac ggccaccgat attatttgcc cgatgtacgc gcgcgtggat gaagaccagc ccttcccggc 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

tgtgccgaaa tggtccatca aaaaatggct ttcgctacct ggagagacgc gcccgctgat cctttgcgaa tacgcccacg cgatgggtaa cagtcttggc 
^2201      ^2211      ^2221      ^2231      ^2241      ^2251      ^2261      ^2271      ^2281      ^2291      

ggtttcgcta aatactggca ggcgtttcgt cagtatcccc gtttacaggg cggcttcgtc tgggactggg tggatcagtc gctgattaaa tatgatgaaa 
^2301      ^2311      ^2321      ^2331      ^2341      ^2351      ^2361      ^2371      ^2381      ^2391      

acggcaaccc gtggtcggct tacggcggtg attttggcga tacgccgaac gatcgccagt tctgtatgaa cggtctggtc tttgccgacc gcacgccgca 
^2401      ^2411      ^2421      ^2431      ^2441      ^2451      ^2461      ^2471      ^2481      ^2491      

tccagcgctg acggaagcaa aacaccagca gcagtttttc cagttccgtt tatccgggca aaccatcgaa gtgaccagcg aatacctgtt ccgtcatagc 
^2501      ^2511      ^2521      ^2531      ^2541      ^2551      ^2561      ^2571      ^2581      ^2591      

gataacgagc tcctgcactg gatggtggcg ctggatggta agccgctggc aagcggtgaa gtgcctctgg atgtcgctcc acaaggtaaa cagttgattg 
^2601      ^2611      ^2621      ^2631      ^2641      ^2651      ^2661      ^2671      ^2681      ^2691      

aactgcctga actaccgcag ccggagagcg ccgggcaact ctggctcaca gtacgcgtag tgcaaccgaa cgcgaccgca tggtcagaag ccgggcacat 
^2701      ^2711      ^2721      ^2731      ^2741      ^2751      ^2761      ^2771      ^2781      ^2791      

cagcgcctgg cagcagtggc gtctggcgga aaacctcagt gtgacgctcc ccgccgcgtc ccacgccatc ccgcatctga ccaccagcga aatggatttt 
^2801      ^2811      ^2821      ^2831      ^2841      ^2851      ^2861      ^2871      ^2881      ^2891      

tgcatcgagc tgggtaataa gcgttggcaa tttaaccgcc agtcaggctt tctttcacag atgtggattg gcgataaaaa acaactgctg acgccgctgc 
^2901      ^2911      ^2921      ^2931      ^2941      ^2951      ^2961      ^2971      ^2981      ^2991      

gcgatcagtt cacccgtgca ccgctggata acgacattgg cgtaagtgaa gcgacccgca ttgaccctaa cgcctgggtc gaacgctgga aggcggcggg 
^3001      ^3011      ^3021      ^3031      ^3041      ^3051      ^3061      ^3071      ^3081      ^3091      

ccattaccag gccgaagcag cgttgttgca gtgcacggca gatacacttg ctgatgcggt gctgattacg accgctcacg cgtggcagca tcaggggaaa 
^3101      ^3111      ^3121      ^3131      ^3141      ^3151      ^3161      ^3171      ^3181      ^3191      

accttattta tcagccggaa aacctaccgg attgatggta gtggtcaaat ggcgattacc gttgatgttg aagtggcgag cgatacaccg catccggcgc 
^3201      ^3211      ^3221      ^3231      ^3241      ^3251      ^3261      ^3271      ^3281      ^3291      

ggattggcct gaactgccag ctggcgcagg tagcagagcg ggtaaactgg ctcggattag ggccgcaaga aaactatccc gaccgcctta ctgccgcctg 
^3301      ^3311      ^3321      ^3331      ^3341      ^3351      ^3361      ^3371      ^3381      ^3391      

ttttgaccgc tgggatctgc cattgtcaga catgtatacc ccgtacgtct tcccgagcga aaacggtctg cgctgcggga cgcgcgaatt gaattatggc 
^3401      ^3411      ^3421      ^3431      ^3441      ^3451      ^3461      ^3471      ^3481      ^3491      

ccacaccagt ggcgcggcga cttccagttc aacatcagcc gctacagtca acagcaactg atggaaacca gccatcgcca tctgctgcac gcggaagaag 
^3501      ^3511      ^3521      ^3531      ^3541      ^3551      ^3561      ^3571      ^3581      ^3591      

gcacatggct gaatatcgac ggtttccata tggggattgg tggcgacgac tcctggagcc cgtcagtatc ggcggaatta cagctgagcg ccggtcgcta 
^3601      ^3611      ^3621      ^3631      ^3641      ^3651      ^3661      ^3671      ^3681      ^3691      

ccattaccag ttggtctggt gtcaaaaata ataataaccg gcaggccatg tctgcccgta ttcgcgtaag aaatccatta tgtactattt gggcgagctc 
^3701      ^3711      ^3721      ^3731      ^3741      ^3751      ^3761      ^3771      ^3781      ^3791      

gaattggcta gagtcgac
^3801      ^3811

Credibility of mRNA sequence:

unknown

The name of the plasmid:
pIRES-lacZ The name of the promoter used to express this mRNA:
T3

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 abbreviated name of the donor gene or virus from which this IRES was excised and inserted into the plasmid:
EMCV-R

The origin of IRES in the plasmid:

nuclear

The donor organism of the IRES segment:

Encephalomyocarditis virus Rueckert

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

gtggcacttt tcggggaaat gtgcgcggaa cccctatttg tttatttttc taaatacatt caaatatgta tccgctcatg agacaataac cctgataaat 
^1         ^11        ^21        ^31        ^41        ^51        ^61        ^71        ^81        ^91        

gcttcaataa tattgaaaaa ggaagagtat gagtattcaa catttccgtg tcgcccttat tccctttttt gcggcatttt gccttcctgt ttttgctcac 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

ccagaaacgc tggtgaaagt aaaagatgct gaagatcagt tgggtgcacg agtgggttac atcgaactgg atctcaacag cggtaagatc cttgagagtt 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

ttcgccccga agaacgtttt ccaatgatga gcacttttaa agttctgcta tgtggcgcgg tattatcccg tattgacgcc gggcaagagc aactcggtcg 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

ccgcatacac tattctcaga atgacttggt tgagtactca ccagtcacag aaaagcatct tacggatggc atgacagtaa gagaattatg cagtgctgcc 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

ataaccatga gtgataacac tgcggccaac ttacttctga caacgatcgg aggaccgaag gagctaaccg cttttttgca caacatgggg gatcatgtaa 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

ctcgccttga tcgttgggaa ccggagctga atgaagccat accaaacgac gagcgtgaca ccacgatgcc tgtagcaatg gcaacaacgt tgcgcaaact 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

attaactggc gaactactta ctctagcttc ccggcaacaa ttaatagact ggatggaggc ggataaagtt gcaggaccac ttctgcgctc ggcccttccg 
^701       ^711       ^721       ^731       ^741       ^751       ^761       ^771       ^781       ^791       

gctggctggt ttattgctga taaatctgga gccggtgagc gtgggtctcg cggtatcatt gcagcactgg ggccagatgg taagccctcc cgtatcgtag 
^801       ^811       ^821       ^831       ^841       ^851       ^861       ^871       ^881       ^891       

ttatctacac gacggggagt caggcaacta tggatgaacg aaatagacag atcgctgaga taggtgcctc actgattaag cattggtaac tgtcagacca 
^901       ^911       ^921       ^931       ^941       ^951       ^961       ^971       ^981       ^991       

agtttactca tatatacttt agattgattt aaaacttcat ttttaattta aaaggatcta ggtgaagatc ctttttgata atctcatgac caaaatccct 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

taacgtgagt tttcgttcca ctgagcgtca gaccccgtag aaaagatcaa aggatcttct tgagatcctt tttttctgcg cgtaatctgc tgcttgcaaa 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

caaaaaaacc accgctacca gcggtggttt gtttgccgga tcaagagcta ccaactcttt ttccgaaggt aactggcttc agcagagcgc agataccaaa 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

tactgtcctt ctagtgtagc cgtagttagg ccaccacttc aagaactctg tagcaccgcc tacatacctc gctctgctaa tcctgttacc agtggctgct 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

gccagtggcg ataagtcgtg tcttaccggg ttggactcaa gacgatagtt accggataag gcgcagcggt cgggctgaac ggggggttcg tgcacacagc 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

ccagcttgga gcgaacgacc tacaccgaac tgagatacct acagcgtgag ctatgagaaa gcgccacgct tcccgaaggg agaaaggcgg acaggtatcc 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

ggtaagcggc agggtcggaa caggagagcg cacgagggag cttccagggg gaaacgcctg gtatctttat agtcctgtcg ggtttcgcca cctctgactt 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

gagcgtcgat ttttgtgatg ctcgtcaggg gggcggagcc tatggaaaaa cgccagcaac gcggcctttt tacggttcct ggccttttgc tggccttttg 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

ctcacatgtt ctttcctgcg ttatcccctg attctgtgga taaccgtatt accgcctttg agtgagctga taccgctcgc cgcagccgaa cgaccgagcg 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

cagcgagtca gtgagcgagg aagcggaaga gcgcccaata cgcaaaccgc ctctccccgc gcgttggccg attcattaat gcagctggca cgacaggttt 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

cccgactgga aagcgggcag tgagcgcaac gcaattaatg tgagttagct cactcattag gcaccccagg ctttacactt tatgcttccg gctcgtatgt 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

tgtgtggaat tgtgagcgga taacaatttc acacaggaaa cagctatgac catgattacg ccaagcgcgc aattaaccct cactaaaggg aacaaaagct 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

ggagctccac cgcggtggcg gccgctctag aactagtgga tcctctagag aattccgccc cccccccccc cccccctctc cctccccccc ccctaacgtt 
^2201      ^2211      ^2221      ^2231      ^2241      ^2251      ^2261      ^2271      ^2281      ^2291      

actggccgaa gccgcttgga ataaggccgg tgtgcgtttg tctatatgtt attttccacc atattgccgt cttttggcaa tgtgagggcc cggaaacctg 
^2301      ^2311      ^2321      ^2331      ^2341      ^2351      ^2361      ^2371      ^2381      ^2391      

gccctgtctt cttgacgagc attcctaggg gtctttcccc tctcgccaaa ggaatgcaag gtctgttgaa tgtcgtgaag gaagcagttc ctctggaagc 
^2401      ^2411      ^2421      ^2431      ^2441      ^2451      ^2461      ^2471      ^2481      ^2491      

ttcttgaaga caaacaacgt ctgtagcgac cctttgcagg cagcggaacc ccccacctgg cgacaggtgc ctctgcggcc aaaagccacg tgtataagat 
^2501      ^2511      ^2521      ^2531      ^2541      ^2551      ^2561      ^2571      ^2581      ^2591      

acacctgcaa aggcggcaca accccagtgc cacgttgtga gttggatagt tgtggaaaga gtcaaatggc tctcctcaag cgtattcaac aaggggctga 
^2601      ^2611      ^2621      ^2631      ^2641      ^2651      ^2661      ^2671      ^2681      ^2691      

aggatgccca gaaggtaccc cattgtatgg gatctgatct ggggcctcgg tgcacatgct ttacatgtgt ttagtcgagg ttaaaaaacg tctaggcccc 
^2701      ^2711      ^2721      ^2731      ^2741      ^2751      ^2761      ^2771      ^2781      ^2791      

ccgaaccacg gggacgtggt tttcctttga aaaacacgat gataagcttg ccacaaccat ggaagatccc gtcgttttac aacgtcgtga ctgggaaaac 
^2801      ^2811      ^2821      ^2831      ^2841      ^2851      ^2861      ^2871      ^2881      ^2891      

cctggcgtta cccaacttaa tcgccttgca gcacatcccc ctttcgccag ctggcgtaat agcgaagagg cccgcaccga tcgcccttcc caacagttgc 
^2901      ^2911      ^2921      ^2931      ^2941      ^2951      ^2961      ^2971      ^2981      ^2991      

gcagcctgaa tggcgaatgg cgctttgcct ggtttccggc accagaagcg gtgccggaaa gctggctgga gtgcgatctt cctgaggccg atactgtcgt 
^3001      ^3011      ^3021      ^3031      ^3041      ^3051      ^3061      ^3071      ^3081      ^3091      

cgtcccctca aactggcaga tgcacggtta cgatgcgccc atctacacca acgtaaccta tcccattacg gtcaatccgc cgtttgttcc cacggagaat 
^3101      ^3111      ^3121      ^3131      ^3141      ^3151      ^3161      ^3171      ^3181      ^3191      

ccgacgggtt gttactcgct cacatttaat gttgatgaaa gctggctaca ggaaggccag acgcgaatta tttttgatgg cgttaactcg gcgtttcatc 
^3201      ^3211      ^3221      ^3231      ^3241      ^3251      ^3261      ^3271      ^3281      ^3291      

tgtggtgcaa cgggcgctgg gtcggttacg gccaggacag tcgtttgccg tctgaatttg acctgagcgc atttttacgc gccggagaaa accgcctcgc 
^3301      ^3311      ^3321      ^3331      ^3341      ^3351      ^3361      ^3371      ^3381      ^3391      

ggtgatggtg ctgcgttgga gtgacggcag ttatctggaa gatcaggata tgtggcggat gagcggcatt ttccgtgacg tctcgttgct gcataaaccg 
^3401      ^3411      ^3421      ^3431      ^3441      ^3451      ^3461      ^3471      ^3481      ^3491      

actacacaaa tcagcgattt ccatgttgcc actcgcttta atgatgattt cagccgcgct gtactggagg ctgaagttca gatgtgcggc gagttgcgtg 
^3501      ^3511      ^3521      ^3531      ^3541      ^3551      ^3561      ^3571      ^3581      ^3591      

actacctacg ggtaacagtt tctttatggc agggtgaaac gcaggtcgcc agcggcaccg cgcctttcgg cggtgaaatt atcgatgagc gtggtggtta 
^3601      ^3611      ^3621      ^3631      ^3641      ^3651      ^3661      ^3671      ^3681      ^3691      

tgccgatcgc gtcacactac gtctgaacgt cgaaaacccg aaactgtgga gcgccgaaat cccgaatctc tatcgtgcgg tggttgaact gcacaccgcc 
^3701      ^3711      ^3721      ^3731      ^3741      ^3751      ^3761      ^3771      ^3781      ^3791      

gacggcacgc tgattgaagc agaagcctgc gatgtcggtt tccgcgaggt gcggattgaa aatggtctgc tgctgctgaa cggcaagccg ttgctgattc 
^3801      ^3811      ^3821      ^3831      ^3841      ^3851      ^3861      ^3871      ^3881      ^3891      

gaggcgttaa ccgtcacgag catcatcctc tgcatggtca ggtcatggat gagcagacga tggtgcagga tatcctgctg atgaagcaga acaactttaa 
^3901      ^3911      ^3921      ^3931      ^3941      ^3951      ^3961      ^3971      ^3981      ^3991      

cgccgtgcgc tgttcgcatt atccgaacca tccgctgtgg tacacgctgt gcgaccgcta cggcctgtat gtggtggatg aagccaatat tgaaacccac 
^4001      ^4011      ^4021      ^4031      ^4041      ^4051      ^4061      ^4071      ^4081      ^4091      

ggcatggtgc caatgaatcg tctgaccgat gatccgcgct ggctaccggc gatgagcgaa cgcgtaacgc gaatggtgca gcgcgatcgt aatcacccga 
^4101      ^4111      ^4121      ^4131      ^4141      ^4151      ^4161      ^4171      ^4181      ^4191      

gtgtgatcat ctggtcgctg gggaatgaat caggccacgg cgctaatcac gacgcgctgt atcgctggat caaatctgtc gatccttccc gcccggtgca 
^4201      ^4211      ^4221      ^4231      ^4241      ^4251      ^4261      ^4271      ^4281      ^4291      

gtatgaaggc ggcggagccg acaccacggc caccgatatt atttgcccga tgtacgcgcg cgtggatgaa gaccagccct tcccggctgt gccgaaatgg 
^4301      ^4311      ^4321      ^4331      ^4341      ^4351      ^4361      ^4371      ^4381      ^4391      

tccatcaaaa aatggctttc gctacctgga gagacgcgcc cgctgatcct ttgcgaatac gcccacgcga tgggtaacag tcttggcggt ttcgctaaat 
^4401      ^4411      ^4421      ^4431      ^4441      ^4451      ^4461      ^4471      ^4481      ^4491      

actggcaggc gtttcgtcag tatccccgtt tacagggcgg cttcgtctgg gactgggtgg atcagtcgct gattaaatat gatgaaaacg gcaacccgtg 
^4501      ^4511      ^4521      ^4531      ^4541      ^4551      ^4561      ^4571      ^4581      ^4591      

gtcggcttac ggcggtgatt ttggcgatac gccgaacgat cgccagttct gtatgaacgg tctggtcttt gccgaccgca cgccgcatcc agcgctgacg 
^4601      ^4611      ^4621      ^4631      ^4641      ^4651      ^4661      ^4671      ^4681      ^4691      

gaagcaaaac accagcagca gtttttccag ttccgtttat ccgggcaaac catcgaagtg accagcgaat acctgttccg tcatagcgat aacgagctcc 
^4701      ^4711      ^4721      ^4731      ^4741      ^4751      ^4761      ^4771      ^4781      ^4791      

tgcactggat ggtggcgctg gatggtaagc cgctggcaag cggtgaagtg cctctggatg tcgctccaca aggtaaacag ttgattgaac tgcctgaact 
^4801      ^4811      ^4821      ^4831      ^4841      ^4851      ^4861      ^4871      ^4881      ^4891      

accgcagccg gagagcgccg ggcaactctg gctcacagta cgcgtagtgc aaccgaacgc gaccgcatgg tcagaagccg ggcacatcag cgcctggcag 
^4901      ^4911      ^4921      ^4931      ^4941      ^4951      ^4961      ^4971      ^4981      ^4991      

cagtggcgtc tggcggaaaa cctcagtgtg acgctccccg ccgcgtccca cgccatcccg catctgacca ccagcgaaat ggatttttgc atcgagctgg 
^5001      ^5011      ^5021      ^5031      ^5041      ^5051      ^5061      ^5071      ^5081      ^5091      

gtaataagcg ttggcaattt aaccgccagt caggctttct ttcacagatg tggattggcg ataaaaaaca actgctgacg ccgctgcgcg atcagttcac 
^5101      ^5111      ^5121      ^5131      ^5141      ^5151      ^5161      ^5171      ^5181      ^5191      

ccgtgcaccg ctggataacg acattggcgt aagtgaagcg acccgcattg accctaacgc ctgggtcgaa cgctggaagg cggcgggcca ttaccaggcc 
^5201      ^5211      ^5221      ^5231      ^5241      ^5251      ^5261      ^5271      ^5281      ^5291      

gaagcagcgt tgttgcagtg cacggcagat acacttgctg atgcggtgct gattacgacc gctcacgcgt ggcagcatca ggggaaaacc ttatttatca 
^5301      ^5311      ^5321      ^5331      ^5341      ^5351      ^5361      ^5371      ^5381      ^5391      

gccggaaaac ctaccggatt gatggtagtg gtcaaatggc gattaccgtt gatgttgaag tggcgagcga tacaccgcat ccggcgcgga ttggcctgaa 
^5401      ^5411      ^5421      ^5431      ^5441      ^5451      ^5461      ^5471      ^5481      ^5491      

ctgccagctg gcgcaggtag cagagcgggt aaactggctc ggattagggc cgcaagaaaa ctatcccgac cgccttactg ccgcctgttt tgaccgctgg 
^5501      ^5511      ^5521      ^5531      ^5541      ^5551      ^5561      ^5571      ^5581      ^5591      

gatctgccat tgtcagacat gtataccccg tacgtcttcc cgagcgaaaa cggtctgcgc tgcgggacgc gcgaattgaa ttatggccca caccagtggc 
^5601      ^5611      ^5621      ^5631      ^5641      ^5651      ^5661      ^5671      ^5681      ^5691      

gcggcgactt ccagttcaac atcagccgct acagtcaaca gcaactgatg gaaaccagcc atcgccatct gctgcacgcg gaagaaggca catggctgaa 
^5701      ^5711      ^5721      ^5731      ^5741      ^5751      ^5761      ^5771      ^5781      ^5791      

tatcgacggt ttccatatgg ggattggtgg cgacgactcc tggagcccgt cagtatcggc ggaattacag ctgagcgccg gtcgctacca ttaccagttg 
^5801      ^5811      ^5821      ^5831      ^5841      ^5851      ^5861      ^5871      ^5881      ^5891      

gtctggtgtc aaaaataata ataaccggca ggccatgtct gcccgtattc gcgtaagaaa tccattatgt actatttggg cgagctcgaa ttggctagag 
^5901      ^5911      ^5921      ^5931      ^5941      ^5951      ^5961      ^5971      ^5981      ^5991      

tcgacnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 
^6001      ^6011      ^6021      ^6031      ^6041      ^6051      ^6061      ^6071      ^6081      ^6091      

nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnctcg agggggggcc cggtacccaa ttcgccctat agtgagtcgt attacgcgcg 
^6101      ^6111      ^6121      ^6131      ^6141      ^6151      ^6161      ^6171      ^6181      ^6191      

ctcactggcc gtcgttttac aacgtcgtga ctgggaaaac cctggcgtta cccaacttaa tcgccttgca gcacatcccc ctttcgccag ctggcgtaat 
^6201      ^6211      ^6221      ^6231      ^6241      ^6251      ^6261      ^6271      ^6281      ^6291      

agcgaagagg cccgcaccga tcgcccttcc caacagttgc gcagcctgaa tggcgaatgg aaattgtaag cgttaatatt ttgttaaaat tcgcgttaaa 
^6301      ^6311      ^6321      ^6331      ^6341      ^6351      ^6361      ^6371      ^6381      ^6391      

tttttgttaa atcagctcat tttttaacca ataggccgaa atcggcaaaa tcccttataa atcaaaagaa tagaccgaga tagggttgag tgttgttcca 
^6401      ^6411      ^6421      ^6431      ^6441      ^6451      ^6461      ^6471      ^6481      ^6491      

gtttggaaca agagtccact attaaagaac gtggactcca acgtcaaagg gcgaaaaacc gtctatcagg gcgatggccc actacgtgaa ccatcaccct 
^6501      ^6511      ^6521      ^6531      ^6541      ^6551      ^6561      ^6571      ^6581      ^6591      

aatcaagttt tttggggtcg aggtgccgta aagcactaaa tcggaaccct aaagggagcc cccgatttag agcttgacgg ggaaagccgg cgaacgtggc 
^6601      ^6611      ^6621      ^6631      ^6641      ^6651      ^6661      ^6671      ^6681      ^6691      

gagaaaggaa gggaagaaag cgaaaggagc gggcgctagg gcgctggcaa gtgtagcggt cacgctgcgc gtaaccacca cacccgccgc gcttaatgcg 
^6701      ^6711      ^6721      ^6731      ^6741      ^6751      ^6761      ^6771      ^6781      ^6791      

ccgctacagg gcgcgtcag
^6801      ^6811

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

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:
lacZ

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

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):

672-3731

Remarks:

The plasmid sequence was published through BCCM/LMBP database which keeps also the plasmid DNA at
http://bccm.belspo.be/db/lmbp_plasmid_details.php?NM=pIRES-lacZ . However, there is no reference
to original publication nor to author of the vector and the plasmid was NOT sequenced! BCCM mostly
does only restriction analysis to confirm the plasmid DNA.

The sequence of the plasmid stored in IRESite is a reverse-complemented sequence of the BCCM sequence.
In addition we have annotated the T3 transcription start site based on Imburgio et al. (2000)
http://pubs.acs.org/doi/abs/10.1021/bi000365w .

A derivative of this plasmid named pIRES-LUC has firefly luciferase (Promega's) instead of lacZ:
http://bccm.belspo.be/db/lmbp_plasmid_details.php?NM=pIRES-LUC .

IRESs:

IRES:

Version: `1`	Last change: `2011-04-08 22:22:20`
Originaly submitted by: Martin Mokrejš	Reviewed by: Martin Mokrejš
The IRES name: `EMCV-R_245-832`	The functional status of IRES: `functional`

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

71-658

How IRES boundaries were determined:
experimentally_determined

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

cccccccccc ccccccccct ctccctcccc cccccctaac gttactggcc gaagccgctt ggaataaggc cggtgtgcgt ttgtctatat gttattttcc 
^71        ^81        ^91        ^101       ^111       ^121       ^131       ^141       ^151       ^161       

accatattgc cgtcttttgg caatgtgagg gcccggaaac ctggccctgt cttcttgacg agcattccta ggggtctttc ccctctcgcc aaaggaatgc 
^171       ^181       ^191       ^201       ^211       ^221       ^231       ^241       ^251       ^261       

aaggtctgtt gaatgtcgtg aaggaagcag ttcctctgga agcttcttga agacaaacaa cgtctgtagc gaccctttgc aggcagcgga accccccacc 
^271       ^281       ^291       ^301       ^311       ^321       ^331       ^341       ^351       ^361       

tggcgacagg tgcctctgcg gccaaaagcc acgtgtataa gatacacctg caaaggcggc acaaccccag tgccacgttg tgagttggat agttgtggaa 
^371       ^381       ^391       ^401       ^411       ^421       ^431       ^441       ^451       ^461       

agagtcaaat ggctctcctc aagcgtattc aacaaggggc tgaaggatgc ccagaaggta ccccattgta tgggatctga tctggggcct cggtgcacat 
^471       ^481       ^491       ^501       ^511       ^521       ^531       ^541       ^551       ^561       

gctttacatg tgtttagtcg aggttaaaaa acgtctaggc cccccgaacc acggggacgt ggttttcctt tgaaaaacac gatgataa
^571       ^581       ^591       ^601       ^611       ^621       ^631       ^641       ^651

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