Table 5 Mapping of potential motifs and synergy tetra-, penta-nucleotides pairs in gene sequences.
[ ] and the bond number in bracket [ ] denotes the 1st exon and its length. MSs consist of all the tetra- and penta-nucleotide in Table 2. For a MS in upstream, the number in its 3'-end bracket () indicates the position of its 3'-end base; for a MS in intron, the number in its 5'-end bracket () indicates the position of the its 5'-end base. The position of the first base ("a") of translation start site is "+1"; the position of the base just at the 5'-end of translation start site is "-1", etc. Underlined bases are SYSs. The number on the shoulder of a SYS denotes the class of synergy. The MSs that do not include any SYS are only shown with they positions. The "..." denote the bases that are not shown. Synergy expressions are shown under the ORF names. The italic bond numbers following the gene sequences are sc values (the confidence of synergy).
|
ORF name and synergy expression |
Distribution of motif 1 and motif 2 in sequence and sc value |
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YBL087C 1E1-1 |
...CAATACAAAACCAA(-22)...(-13)...[42]...(+48)TTAAAATTTTTATTT.... 15.55 |
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YBL027W 1E111 |
...TCACCAATAAATTAGAGGAAA(-1)[2]...(+8)TTTAA...(+17)...(+22)...(+35)...(+44)ATTTATCTTTAAATAT...(+61)TTATGAAT... 17.07 |
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YBR181C 12E21 |
...ACATTTGG1AAG(-45)...(-32)...(-18)...ACTGA2GCCATC(-1)[6]...(+12)TAATATC2...(+22)...(+31)AGAAT1TCTAATGAAT... 6.22 |
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YBR191W 1E11 |
...AGAGAACCAAGA(-19)...(-5)...[11]...(+19)ATTTAAT...(+30)TGAAT... 9.76 |
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YDL136W 21E1211 |
...TTGGGGGTTTGGTAGTACAGTG2AGA(-30)...AACCAA1ATAGGACT(-5)...[3]...(+15)TGAATAT1...(+23)...(+33)ACGTGA2TATAAT...(+46)TGCTA1...(+63)...(+69)TTTAA1TGTCT... 20.99 |
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YDL083C 2E2 |
...GCAGTGTTTCGAAA(-27)...(-13)...[24]...(+30)...(+49)TCACGAATTTG... 3.17 |
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YDR025W 1E1 |
...TTGGAAC(-30)...(-23)...(-15)ˇ(-3)...[45]...(+49)TGAATTTA... 3.15 |
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YDR064W 2E22 |
...TCAGT(-5)...[21]...(+27)TTTATTAACACCA...(+46)GATATTAAT... 6.17 |
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YDR471W 1E1 |
...TTGGTGAAA(-33)...(-25)...(-19)...(-12)...(-6)...(-1)[31]...(+37)TAAATTTAA... 6.62 |
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YER074W 1E11 |
...AGATTTCAAGAAACCAACATAGATT(-9)...(-2)...[3]...(+9)TTAAAA...(+25)...(+41)ATATTCCATGTTAAA... 17.93 |
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YFL039C 12E21 |
...TTTCTTCCCAA1GA(-23)...GAAAATTTACTGA2A(-7)...[10]...(+23)GCTTGCACCA2...(+37)...(+51)AGAAT1T... 6.25 |
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YGL103W 1E1 |
...CATCCAA(-11)...(-1)[49]...(+62)...(+74)GAATGAAAˇ 3.15 |
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YGL076C 1E11 |
...AACCAACCAAG(-16)...(-10)...[11]...(+22)...(+28)GTCTATTTTATTACTATTTC...(+49)...(+54)...(+104)...(+114)TAATAGCATTTG... 13.72 |
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YGL030W 1E1-11 |
...AACCAAACAGACCGGAGTGT(-43)...(-28)...(-20)...(-10)ˇ(-1)[3]...(+10)ATAACATGATTTTATAACTATTTC...(+36)...(+52)ATTAGCA... 13.72 |
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YHR010W 1E1 |
...AACCAA(-9)...(-4)...[31]...(+37)...(+71)...(+80)...(+99)TTATTAGCA... 4.79 |
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YIL148W 1E111 |
...ACCAAGATTCAAAC(-1)[8]...(+14)ˇ(+24)ATTCTAAAˇ(+33)...(+48)...(+56)TTAAA...(+66)AATTATTTTA... 18.70 |
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YIL018W 1E111 |
...TCACCAAGAAACCA(-16)...(-3)...[4]...(+11)TTTTATTATATCG...(+25)...(+35)ˇ(+41)...(+50)ATTC...(+73)...(+84)ˇ(+97)...(+108)...(+124)TAGCA... 12.83 |
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YJL189W 12E1(2)1 |
...CTTTCTACAATTTTTGGT1ACATTCA(-53)...ACTGA2AAATT(-37)...(-32)...(-10)...[6]...(+19)GATATT1,2ATAAAT...(+44)...(+52)TCAATAGCA1AATTATAAACCAC... 11.13 |
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YJR145C 1E1 |
...CAAACCAA(-18)...(-5)...[14]...(+24)...(+37)...(+60)AGAATGATAGAC... 3.15 |
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YKR057W 1E11 |
...CAGGCGTAAATTAACCACATACAAACCATAGAAACATCATACCAA(-2)...[24]...(+35)...(+42)...(+47)ATTTTTTATATTTTAA...(+67)TGAAT... 21.97 |
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YLR061W 1E11 |
...AAACCACCAA(-20)...(-9)...(-3)...[12]...(+17)ˇ(+22)TTTAAAA...(+30)GAAT... 14.65 |
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YLR344W 1E11-1 |
...AACCAA(-16)...(-1)[19]...(+29)CAAATGCTAAAT...(+44)...(+62)GAATTGAAAATATAGT... 15.24 |
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YML073C 1E1 |
...AGCCATCCAA(-5)...[15]...(+27)...(+51)...(+60)ATTCACG... 3.14 |
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YNL302C 1E111 |
...AACCAA(-12)...[20]...(+27)...(+32)...(+40)ATTGAAT...(+50)TATTTA...(+57)...(+67)GATATTA... 10.46 |
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YNL162W 12E12 |
...TGGTCCAA1ATG(-51)...(-38)...(-20)...TCAGT2(-5)...[4]...(+10)TTATAACCATAATTC1...(+26)TAATGGTG2AATAAAAT... 6.25 |
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YNL069C 1E1-1 |
...AACCAACCAACCATA(-5)...[28]...(+34)TAAAAAATTTCTAATTCT... 8.04 |
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YOR293W 1E1 |
...AGTAGCCAAG(-1)...[52]...(+58)TTTTAGAATAA... 3.14 |
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YPL143W 1E111 |
...GAAACCAA(-20)...(-2)...[19]...(+25)TTAAAA...(+43)AGACATTAAAAATATTT...(+62)TGCTAˇ 23.61 |
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YPL079W 12E12 |
...TTGGT1AATTTGAAAAGTAGGTTTC(-41)...GAAACTGA2GACAGT(-19)...(-9)...[11]...(+20)...(+27)TTCAAAATGAAAATATAGCA1...(+49)...(+55)ATATC2AATTAAAT... 7.86 |
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YPR043W 2E2 |
...AACTGAGA(-6)...[2]...(+7)GATATATTA... 3.07 |