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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCACACCAAGGGTCACATTAGTTATTATGTGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTTgtaagtggtaacattaagctgaatcctcttgttcttccctaccatggaccctatatgttctccgtagatcttttatctctgtaaatgtctaaatggagatagttatgagttaaacattaagctgtgtttactttgattttatacag

Basic information

species Arabidopsis thaliana
transcript AT3G10850.1
intron # 4
splice site 5'
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|19876010|gb|AU236841.1|AU236841
EST:     TGAACGGAAAAGAACGAGAAAACCCAGCCGTGTTCACCGGAGATACACTT                         TTNTGTTGCTGGATGTGGGAAGTNTTTNTGAAGGGACA
genomic: TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTTgtaagtggta ... ttttatacagTT-TGTTGCTGGATGTGGGAAGTTTTT-TGAAGGGACA
EST: gi|124812895|gb|EH897761.1|EH897761
EST:     TTCACCGGAGATACACTT                         TTTGTTGCTGGATGTGGGAAG-TTTTTGAAGGGACAGCTGAGCAGATGTAT
genomic: TTCACCGGAGATACACTTgtaagtggta ... ttttatacagTTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTAT
EST: gi|86023772|gb|DR319525.1|DR319525
EST:     TGACCGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTT                         TTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTAT
genomic: TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTTgtaagtggta ... ttttatacagTTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTAT
EST: gi|86023773|gb|DR319526.1|DR319526
EST:     TGACCGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTT                         TTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCA
genomic: TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTTgtaagtggta ... ttttatacagTTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCA
EST: gi|124822321|gb|EH907187.1|EH907187
EST:     TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTT                         TTTGTTGCTGGAT
genomic: TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTTgtaagtggta ... ttttatacagTTTGTTGCTGGAT
EST: gi|125061220|gb|EL129859.1|EL129859
EST:     CGGAGATACACTT                         TTTGTTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTA
genomic: CGGAGATACACTTgtaagtggta ... ttttatacagTTTG-TTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTA
EST: gi|124952367|gb|EL027644.1|EL027644
EST:     TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTT                         TTTGTTGCTGGATGTGGG
genomic: TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTTgtaagtggta ... ttttatacagTTTGTTGCTGGATGTGGG
EST: gi|86023775|gb|DR319528.1|DR319528
EST:     TGACCGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTT                         TTTGTTGCTGGATGTGGGAAG
genomic: TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTTgtaagtggta ... ttttatacagTTTGTTGCTGGATGTGGGAAG
EST: gi|164131021|gb|ES181972.1|ES181972
EST:     CCAGCCGTGTTCACCGGAGATACACTT                         TTTGTTGACTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTA
genomic: CCAGCCGTGTTCACCGGAGATACACTTgtaagtggta ... ttttatacagTTTGTTG-CTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTA
EST: gi|125127735|gb|EL172418.1|EL172418
EST:     TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTT                         TTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGA
genomic: TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTTgtaagtggta ... ttttatacagTTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGA
EST: gi|124902265|gb|EH976345.1|EH976345
EST:     CCGGAGATACACTT                         TTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTAT
genomic: CCGGAGATACACTTgtaagtggta ... ttttatacagTTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCACACCAAGGGTCACATTAGTTATTATGTGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTTgtaagtggtaacattaagctgaatcctcttgttcttccctaccatggaccctatatgttctccgtagatcttttatctctgtaaatgtctaaatggagatagttatgagttaaacattaagctgtgtttactttgattttatacag

- - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT