Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaagatcatatcattgtacttagtttagtcaggagaaaattatctcacttaatctgtggaagaaactgggaatttactgttggtttaatgattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAGAAGCAACTCACCAAGCTCAGGGCAAAGGCCGAGAAGGTTGCAGAGGAGA

Basic information

species Arabidopsis thaliana
transcript AT3G24830.1
intron # 3
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|86064141|gb|DR359898.1|DR359898
EST:     TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|164107180|gb|ES018162.1|ES018162
EST:     TCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: TCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|116445907|gb|EG488499.1|EG488499
EST:     TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|125247279|gb|EL261364.1|EL261364
EST:     AGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: AGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|124947899|gb|EL023702.1|EL023702
EST:     GTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: GTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|164144904|gb|ES072362.1|ES072362
EST:     GTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTG-ATGAGCGTAAG
genomic: GTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|125061306|gb|EL129945.1|EL129945
EST:     CGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: CGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|164197613|gb|ES042609.1|ES042609
EST:     TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGT
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGT
EST: gi|164138430|gb|ES066573.1|ES066573
EST:     TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCAC
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCAC
EST: gi|86086265|gb|DR382024.1|DR382024
EST:     TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|86064135|gb|DR359892.1|DR359892
EST:     TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|86078574|gb|DR374331.1|DR374331
EST:     TGGGACGTTTGTCTTCTGAAGTTGTCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|86064139|gb|DR359896.1|DR359896
EST:     TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|124929100|gb|EL006679.1|EL006679
EST:     ATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: ATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|47828738|gb|CK118422.1|CK118422
EST:     TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|116443797|gb|EG486389.1|EG486389
EST:     TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|124881466|gb|EH960368.1|EH960368
EST:     TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTG
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTG
EST: gi|86081584|gb|DR377341.1|DR377341
EST:     TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|164141779|gb|ES022026.1|ES022026
EST:     TTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGGGGTCACAAGCTTTGTATGAGCGTAAG
genomic: TTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|86064132|gb|DR359889.1|DR359889
EST:     TGAGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|164094527|gb|ES087070.1|ES087070
EST:     TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTG
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTG
EST: gi|125196305|gb|EL211259.1|EL211259
EST:     CTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAA
genomic: CTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAA-
EST: gi|125116906|gb|EL166259.1|EL166259
EST:     TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGT
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGT
EST: gi|86082055|gb|DR377814.1|DR377814
EST:     TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|164031466|gb|ES000651.1|ES000651
EST:     GAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: GAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|86084454|gb|DR380213.1|DR380213
EST:     TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|124983385|gb|EL056120.1|EL056120
EST:     GGGACGTTTGTCTTCTGAAGTTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTG
genomic: GGGACGTTTGTCTTCTGAAG-TTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTG
EST: gi|164132192|gb|ES143285.1|ES143285
EST:     AACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: AACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
EST: gi|124778909|gb|EH868852.1|EH868852
EST:     TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGG
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGG
EST: gi|164110774|gb|ES063675.1|ES063675
EST:     TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAG
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAG
EST: gi|124902861|gb|EH976941.1|EH976941
EST:     TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGG
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGG
EST: gi|124951708|gb|EL027049.1|EL027049
EST:     AAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGACTTTGTATGAGCGTAA
genomic: AAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAG-CTTTGTATGAGCGTAA
EST: gi|164069862|gb|ES127448.1|ES127448
EST:     GGGACGTTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GNGCTTGAGGTG
genomic: GGGACGTTT-GTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTG
EST: gi|164133214|gb|ES007389.1|ES007389
EST:     GTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAG
genomic: GTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAG
EST: gi|86064133|gb|DR359890.1|DR359890
EST:     TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAG                         GAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG
genomic: TGGGACGTTTGTCTTCTGAAGTTGGCTGGAACCATTACGATACCATCAAGgtatgtccct ... gattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcacttaatctgtggaagaaactgggaatttactgttggtttaatgattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAGAAGCAACTCACCAAGCTCAGGGCAAAGGCCGAGAAGGTTGCAGAGGAGA
                                       tttaatgattttaca  TA-rich tract
















Putative cis-regulatory sequences

 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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgaagatcatatcattgtacttagtttagtcaggagaaaattatctcacttaatctgtggaagaaactgggaatttactgttggtttaatgattttacagGAGCTTGAGGTGAAGAGAAAGGAGAGGTCACAAGCTTTGTATGAGCGTAAGAAGCAACTCACCAAGCTCAGGGCAAAGGCCGAGAAGGTTGCAGAGGAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- aagatca
- - - - - - - - - - - - - - - - -gagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagaaac