IRESite_Id:58 summary record describing characteristics of hSNM1 IRES

IRESite: The database of experimentally verified IRES structures

The nucleic acid data:

IRESite Id: `58`	Version: `1`
Originaly submitted by: Václav Vopálenský	Submission date: `2005-07-30 00:00:00`
Reviewed by: Václav Vopálenský	Last change: `2006-04-28 00:00:00`

IRESite record type:

natural_transcript

The shape of the nucleic acid molecule translated: `linear`	The quality of the mRNA/+RNA sequence: `both_UTRs_possibly_incomplete`
The abbreviated name of the virus/gene coding for this mRNA/+RNA molecule: `hSNM1`	The genetic origin of this natural mRNA/+RNA: `nuclear`

The GenBankId GI:# number of exactly this mRNA/+RNA sequence:
577302

The mRNA/+RNA description:

Homo sapiens KIAA0086 mRNA, partial cds.

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

ggactctgag ggctttttgg agctcgctat gcttaacctg gagatgatta aggccccgct tcctggcctc ccagcctcta atgccaaaag ataagggaga 
^1         ^11        ^21        ^31        ^41        ^51        ^61        ^71        ^81        ^91        

ggctggcgtg tgaccccgtt ttgagtcagg tggacagagg gctggccacc ttcggaacca tgggtgcaat acggagtcag acctcaatac aagcccactc 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

tttcacatat ttgaactttt ttcacatatc aacttttttt gttcactgtg cagggattgt tcattgctgc tggaggaaga tcatggactg tcgcgggaaa 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

ctgaagtggt tgagtatcca ctagtcgtgg atgagggcag tgacttcgca gttttttgcg aattacacat ctctttgatt atgttgtgac tagttttgtt 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

agatagtcat ttagtgtttg ggatacctgt taagcccttt gtccagggac tgtggttgga tttatgaatt atttggacgg ttgtccactt gaaagaactg 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

acagtagctt cataacaatg ttacaaatct cgttctaaga ttaagctgtt gaacctatat ttgccattag cgcttaattt ttgaagtatt atttttatga 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

atcaagccct ggaaaaggac aagatatttg aatgaaatag cacccataat ggagaacttc acagttgcta ctcctgtgat aggtttatct tagtttcatt 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

gtggtataaa tggaatagca ggtgttgtca ggtacaaggt ttgtagcttg ccaatatgtt cattaccaac actgcagatt cccattgagt tggtgggggt 
^701       ^711       ^721       ^731       ^741       ^751       ^761       ^771       ^781       ^791       

tttgttacct ttgttttttt tctcagcaaa ataattctat aactttttgt ttgtgacaag aaatggactt tcagtttact taagattaat acttcttgaa 
^801       ^811       ^821       ^831       ^841       ^851       ^861       ^871       ^881       ^891       

tgataaaatc attttgccat gttagaagac atttccgaag aagacatttg ggaatacaaa tctaaaagaa aaccaaaacg agttgatcca aataatggct 
^901       ^911       ^921       ^931       ^941       ^951       ^961       ^971       ^981       ^991       

ctaaaaatat tctaaaatct gttgaaaaag caacagatgg aaaataccag tcaaaacgga gtagaaacag aaaaagagcc gcagaagcta aagaggtgaa 
^1001      ^1011      ^1021      ^1031      ^1041      ^1051      ^1061      ^1071      ^1081      ^1091      

ggaccatgaa gtgccccttg gaaatgcagg ttgtcagact tctgttgctt ctagtcagaa ttcaagttgt ggagatggta ttcagcagac ccaagacaag 
^1101      ^1111      ^1121      ^1131      ^1141      ^1151      ^1161      ^1171      ^1181      ^1191      

gaaactactc caggaaaact ctgtagaact caaaaaagcc aacacgtgtc cccaaagata cgtccagttt atgatggata ctgtccaaat tgccagatgc 
^1201      ^1211      ^1221      ^1231      ^1241      ^1251      ^1261      ^1271      ^1281      ^1291      

ctttttcctc attgataggg cagacacctc gatggcatgt ttttgaatgt ttggattctc caccacgctc tgaaacagag tgtcctgatg gtcttctgtg 
^1301      ^1311      ^1321      ^1331      ^1341      ^1351      ^1361      ^1371      ^1381      ^1391      

tacctcaacc attccttttc attacaagag atacactcac ttcctgctag ctcaaagcag ggctggtgat catcctttta gcagcccatc acctgcgtca 
^1401      ^1411      ^1421      ^1431      ^1441      ^1451      ^1461      ^1471      ^1481      ^1491      

ggtggcagtt tcagtgagac taagtcaggc gtcctttgta gccttgagga aagatggtct tcgtatcaga accaaactga taactcggtt tcaaatgatc 
^1501      ^1511      ^1521      ^1531      ^1541      ^1551      ^1561      ^1571      ^1581      ^1591      

ccttattgat gacacagtat tttaaaaagt ctccgtctct gactgaagcc agtgaaaaga tttctactca tatccaaaca tcccaacaag ctctacaatt 
^1601      ^1611      ^1621      ^1631      ^1641      ^1651      ^1661      ^1671      ^1681      ^1691      

tacagatttt gttgagaatg acaaactagt gggagttgct ttgcgtcttg caaacaactc agaacacata aatttgccat tgccagaaaa tgacttcagt 
^1701      ^1711      ^1721      ^1731      ^1741      ^1751      ^1761      ^1771      ^1781      ^1791      

gactgtgaaa tctcctattc tccacttcaa agtgatgaag acactcatga tatcgatgaa aaaccggatg attcacaaga acaactgttt tttaccgaaa 
^1801      ^1811      ^1821      ^1831      ^1841      ^1851      ^1861      ^1871      ^1881      ^1891      

gctcaaaaga tggcagcctc gaagaagatg atgacagctg tggttttttt aaaaaacgac atggtccctt actgaaggac caggatgaga gctgccccaa 
^1901      ^1911      ^1921      ^1931      ^1941      ^1951      ^1961      ^1971      ^1981      ^1991      

agtgaacagc ttcttaactc gggataagta tgatgaagga ttgtatagat tcaatagtct aaatgatttg tctcaaccta tttctcaaaa taatgagagt 
^2001      ^2011      ^2021      ^2031      ^2041      ^2051      ^2061      ^2071      ^2081      ^2091      

actttgcctt atgatctggc atgtactggt ggtgattttg tgttgtttcc acctgcattg gcagggaagc ttgctgcttc tgttcatcag gcaactaaag 
^2101      ^2111      ^2121      ^2131      ^2141      ^2151      ^2161      ^2171      ^2181      ^2191      

caaaacctga tgagccagaa tttcactcag ctcaatcaaa taaacagaaa caggtaattg aagaatcatc tgtttacaat caagtttctc ttccgttagt 
^2201      ^2211      ^2221      ^2231      ^2241      ^2251      ^2261      ^2271      ^2281      ^2291      

taagagttta atgttgaaac cttttgaaag tcaggtagaa gggtatcttt cttcccaacc aacccaaaat acaattagaa aattatcaag tgagaacttg 
^2301      ^2311      ^2321      ^2331      ^2341      ^2351      ^2361      ^2371      ^2381      ^2391      

aatgctaaga ataatactaa ctcagcatgt ttctgcagaa aggcattaga gggtgtgcca gttggtaaag ctacaatttt aaatacagaa aacttgtcta 
^2401      ^2411      ^2421      ^2431      ^2441      ^2451      ^2461      ^2471      ^2481      ^2491      

gtacacctgc tccgaagtat ttgaaaatat tgccttctgg tcttaagtat aatgcaagac atccttctac caaggtaatg aagcaaatgg atataggtgt 
^2501      ^2511      ^2521      ^2531      ^2541      ^2551      ^2561      ^2571      ^2581      ^2591      

gtattttgga ctacctccca aaagaaagga agagaaattg ctaggggaaa gtgcattaga agggataaac ttaaatccag ttccaagtcc taatcaaaag 
^2601      ^2611      ^2621      ^2631      ^2641      ^2651      ^2661      ^2671      ^2681      ^2691      

aggtcctcgc agtgcaagag gaaagcagaa aaatctttaa gtgatttaga atttgatgca agtactttac atgagagtca gctttctgtg gaactttcta 
^2701      ^2711      ^2721      ^2731      ^2741      ^2751      ^2761      ^2771      ^2781      ^2791      

gtgagaggtc acagcgtcaa aaaaagagat gtagaaagtc aaattcactg caggaaggag cgtgtcagaa gagatcagat caccttatta atacagaatc 
^2801      ^2811      ^2821      ^2831      ^2841      ^2851      ^2861      ^2871      ^2881      ^2891      

tgaagcagtc aatttaagta aagtcaaagt cttcacaaaa tcagctcatg gtgggctgca aaggggcaac aagaaaatcc cagagtcatc taatgtagga 
^2901      ^2911      ^2921      ^2931      ^2941      ^2951      ^2961      ^2971      ^2981      ^2991      

ggatcaagaa aaaagacatg tccattctat aagaaaatac ctggaaccgg ctttacagtt gatgcctttc agtatggcgt ggttgaaggt tgcacagcct 
^3001      ^3011      ^3021      ^3031      ^3041      ^3051      ^3061      ^3071      ^3081      ^3091      

attttctcac acattttcat tctgatcatt atgctggatt gtctaaacac ttcacatttc cagtttattg tagtgagata actggcaatt tgttgaagaa 
^3101      ^3111      ^3121      ^3131      ^3141      ^3151      ^3161      ^3171      ^3181      ^3191      

caagcttcat gtgcaagaac aatatattca cccattgcca ctggacactg aatgtattgt gaatggtgtc aaagttgttt tgcttgatgc caatcactgt 
^3201      ^3211      ^3221      ^3231      ^3241      ^3251      ^3261      ^3271      ^3281      ^3291      

ccaggtgctg tcatgatcct cttttatctt cctaatggta ctgtcatatt acacacggga gacttcagag cagatcccag catggaacgt tctcttcttg 
^3301      ^3311      ^3321      ^3331      ^3341      ^3351      ^3361      ^3371      ^3381      ^3391      

cggaccagaa agtccatatg ctgtacttag ataccacata ttgtagccca gaatacacct ttccatctca gcaagaggtt atccggtttg ccatcaacac 
^3401      ^3411      ^3421      ^3431      ^3441      ^3451      ^3461      ^3471      ^3481      ^3491      

tgcctttgag gctgtaactc taaacccaca tgctcttgtt gtctgtggca cttactctat tggaaaagag aaagtcttcc tagccattgc tgatgtttta 
^3501      ^3511      ^3521      ^3531      ^3541      ^3551      ^3561      ^3571      ^3581      ^3591      

ggttcaaaag tgggcatgtc ccaggaaaaa tataaaactc tacagtgcct caatatacca gaaattaatt cactcatcac taccgacatg tgcagttcat 
^3601      ^3611      ^3621      ^3631      ^3641      ^3651      ^3661      ^3671      ^3681      ^3691      

tggttcacct tctcccaatg atgcaaatta attttaaggg cttacagagt catttgaaga agtgtggtgg gaaatacaat cagattttgg catttcgacc 
^3701      ^3711      ^3721      ^3731      ^3741      ^3751      ^3761      ^3771      ^3781      ^3791      

tacaggatgg acacactcta acaagttcac tagaatagca gatgttattc cccagaccaa aggaaacatt tcaatatatg gaattcctta cagtgaacac 
^3801      ^3811      ^3821      ^3831      ^3841      ^3851      ^3861      ^3871      ^3881      ^3891      

agcagctacc tagaaatgaa gcgctttgtc cagtggctga agccccagaa aatcatacct actgtaaatg tgggcacctg gaaatctagg agcacaatgg 
^3901      ^3911      ^3921      ^3931      ^3941      ^3951      ^3961      ^3971      ^3981      ^3991      

agaaatattt tagagagtgg aaattggaag ctggatattg atgatacctc cgaggattca gtagtagtta agttccttgg atgtagcttg ttagtagtta 
^4001      ^4011      ^4021      ^4031      ^4041      ^4051      ^4061      ^4071      ^4081      ^4091      

aatctataga aatgtgaaat acactttgtg tggaaaaacc tcatgaagat tgttcagata ctttattttc tcatttatgt ttgaacaaca tgttcgtggt 
^4101      ^4111      ^4121      ^4131      ^4141      ^4151      ^4161      ^4171      ^4181      ^4191      

gctgaatgcc tctcagcatc atcaaggata actgaaactg ggtctccctg ggacccttaa tttcttgtcc cctgccctcc atgggcagtt atattctgca 
^4201      ^4211      ^4221      ^4231      ^4241      ^4251      ^4261      ^4271      ^4281      ^4291      

tcaagcctta gaagaggaag caaaggcaga ttcagggacc aaaaggatta atgataatta ataaagtagt ttgaagcatt atatatataa gtaattatgt 
^4301      ^4311      ^4321      ^4331      ^4341      ^4351      ^4361      ^4371      ^4381      ^4391      

gtctttaaaa ttatgagatg aaacttttat atgacgtgta tacttaaata aaattaatat aaaatttg
^4401      ^4411      ^4421      ^4431      ^4441      ^4451      ^4461

Credibility of mRNA sequence:

guessed_as_the_sequence_was_never_published_by_authors_nor_described_in_sufficient_detail

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

Homo sapiens

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: Václav Vopálenský	Reviewed by: Václav Vopálenský

The abbreviated name of this ORF/gene:
hSNM1

The description of the protein encoded in this ORF:
The ha3611 gene product is related to S.cerevisiae SNM1 protein.

The translational frameshift (ribosome slippage) involved:
0 The ribosome read-through involved:
no

The alternative forms of this protein occur by the alternative initiation of translation:

no

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

919-4041

OPTIONAL: The function of the encoded protein

Probably involved in DNA repair?

Remarks:

Start codon is not identified.

Citations:

Zhang X., Richie C., Legerski R. J. (2002) Translation of hSNM1 is mediated by an internal ribosome entry site that upregulates expression during mitosis. DNA Repair. 1(Amst):379-390

IRESs:

IRES:

Version: `4`	Last change: `2007-01-23 00:00:00`
Originaly submitted by: Václav Vopálenský	Reviewed by: Václav Vopálenský
The IRES name: `hSNM1`

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

1-918

Conclusion:
putative_IRES

How IRES boundaries were determined:
guessed

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

ggactctgag ggctttttgg agctcgctat gcttaacctg gagatgatta aggccccgct tcctggcctc ccagcctcta atgccaaaag ataagggaga 
^1         ^11        ^21        ^31        ^41        ^51        ^61        ^71        ^81        ^91        

ggctggcgtg tgaccccgtt ttgagtcagg tggacagagg gctggccacc ttcggaacca tgggtgcaat acggagtcag acctcaatac aagcccactc 
^101       ^111       ^121       ^131       ^141       ^151       ^161       ^171       ^181       ^191       

tttcacatat ttgaactttt ttcacatatc aacttttttt gttcactgtg cagggattgt tcattgctgc tggaggaaga tcatggactg tcgcgggaaa 
^201       ^211       ^221       ^231       ^241       ^251       ^261       ^271       ^281       ^291       

ctgaagtggt tgagtatcca ctagtcgtgg atgagggcag tgacttcgca gttttttgcg aattacacat ctctttgatt atgttgtgac tagttttgtt 
^301       ^311       ^321       ^331       ^341       ^351       ^361       ^371       ^381       ^391       

agatagtcat ttagtgtttg ggatacctgt taagcccttt gtccagggac tgtggttgga tttatgaatt atttggacgg ttgtccactt gaaagaactg 
^401       ^411       ^421       ^431       ^441       ^451       ^461       ^471       ^481       ^491       

acagtagctt cataacaatg ttacaaatct cgttctaaga ttaagctgtt gaacctatat ttgccattag cgcttaattt ttgaagtatt atttttatga 
^501       ^511       ^521       ^531       ^541       ^551       ^561       ^571       ^581       ^591       

atcaagccct ggaaaaggac aagatatttg aatgaaatag cacccataat ggagaacttc acagttgcta ctcctgtgat aggtttatct tagtttcatt 
^601       ^611       ^621       ^631       ^641       ^651       ^661       ^671       ^681       ^691       

gtggtataaa tggaatagca ggtgttgtca ggtacaaggt ttgtagcttg ccaatatgtt cattaccaac actgcagatt cccattgagt tggtgggggt 
^701       ^711       ^721       ^731       ^741       ^751       ^761       ^771       ^781       ^791       

tttgttacct ttgttttttt tctcagcaaa ataattctat aactttttgt ttgtgacaag aaatggactt tcagtttact taagattaat acttcttgaa 
^801       ^811       ^821       ^831       ^841       ^851       ^861       ^871       ^881       ^891       

tgataaaatc attttgcc
^901       ^911

Remarks:

IRES activity was shown in transiently transfected cells with bicistronic constructs.

Citations:

Zhang X., Richie C., Legerski R. J. (2002) Translation of hSNM1 is mediated by an internal ribosome entry site that upregulates expression during mitosis. DNA Repair. 1(Amst):379-390

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