1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' |
gtaaatatgacgcacttacaaactcaaatgctcatcaattatgaaatcctagattctgcagaccctaatgtgtattttgtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGGAGCTCAAGGAAGAGAAGGACTTGGCGTACTCATGCCTCTCTTAAACCCT
species | Arabidopsis thaliana |
transcript | AT1G04410.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
EST: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAG GCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGAEST: gi|164066511|gb|EL995529.1|EL995529
genomic: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGA
EST: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAG GCCTTCCGATTGAEST: gi|125284248|gb|EL298333.1|EL298333
genomic: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGA
EST: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAG GCCTTCCGATTGATGAAGTATCAAGGAAGAAGEST: gi|124743031|gb|EH834193.1|EH834193
genomic: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAG
EST: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAG GCCTTCCGATTGATGAAGTATCAAGGAAGEST: gi|164192443|gb|ES030423.1|ES030423
genomic: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAG
EST: GGAGACTGGAGTATTGTCCAAG GCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGEST: gi|124881586|gb|EH960488.1|EH960488
genomic: GGAGACTGGAGTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGG
EST: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAG GCCTTCCGATTEST: gi|164022273|gb|ES109150.1|ES109150
genomic: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATT
EST: GTATTGTCCAAG GCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGGEST: gi|124769782|gb|EH859912.1|EH859912
genomic: GTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGG
EST: TGTCGCAATGGAGACTGGAGTATTGTTCCAAG GCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGEST: gi|125208134|gb|EL223088.1|EL223088
genomic: TGTCGCAATGGAGACTGGAGTATTG-TCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAG
EST: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAG GCCTTCCGATTGATGAAGEST: gi|124910145|gb|EH984225.1|EH984225
genomic: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAG
EST: AGACTGGAGTATTGTCCTAAG GCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAAEST: gi|124919485|gb|EH993242.1|EH993242
genomic: AGACTGGAGTATTGTCC-AAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGA-
EST: CCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAG GCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGGEST: gi|116378554|gb|EG421146.1|EG421146
genomic: CCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGG
EST: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAG GCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGGEST: gi|124892962|gb|EH971864.1|EH971864
genomic: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGG
EST: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAG GCCTTCCGATTGATGAAGTATCAAGGAAGAAGEST: gi|116378552|gb|EG421144.1|EG421144
genomic: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAG
EST: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAG GCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGGEST: gi|124789612|gb|EH879291.1|EH879291
genomic: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGG
EST: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAG GCCTTCCGATTGATGAAGTAEST: gi|86081490|gb|DR377247.1|DR377247
genomic: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAGTA
EST: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAG GCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGGEST: gi|116469998|gb|EG512590.1|EG512590
genomic: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGG
EST: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAG GCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGGEST: gi|125064273|gb|EL131954.1|EL131954
genomic: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGG
EST: CTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAG GCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGGEST: gi|125082767|gb|EL143562.1|EL143562
genomic: CTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGG
EST: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAG GCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGEST: gi|86080897|gb|DR376654.1|DR376654
genomic: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAG
EST: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAG GCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGGEST: gi|124705833|gb|EH797235.1|EH797235
genomic: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGG
EST: GTCGCAATGGAGACTGGAGTATTGTCCAAG GCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAEST: gi|116376802|gb|EG419394.1|EG419394
genomic: GTCGCAATGGAGACTGGAGTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGA
EST: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAG GCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGG
genomic: CTACTCCTTCCCTGTAACTTGTCGCAATGGAGACTGGAGTATTGTCCAAGgtaaatatga ... gtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGG
atcaattatgaaatcctagattctgcagaccctaatgtgtattttgtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGGAGCTCAAGGAAGAGAAGGACTTGGCGTACTCATGCCTCTCTTAAACCCT
ccctaat putative branch site (score: 3)
ttttgttt putative PPT
tattttgttt TA-rich tract
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtaaatatgacgcacttacaaactcaaatgctcatcaattatgaaatcctagattctgcagaccctaatgtgtattttgtttggttagGCCTTCCGATTGATGAAGTATCAAGGAAGAAGATGGATTTGACTGCAGAGGAGCTCAAGGAAGAGAAGGACTTGGCGTACTCATGCCTCTCTTAAACCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA