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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggcatctttgcattgatctaagtgtcactagattctttgattgacatatgtttattaaaaatgtttcctttttttgtgtgaattgggtcatttattacagGCCGGATGCTTCAACTCCTATCGAAGAGACTGTGAGGGCGATGAACTACGTGATTGATAAGGGTTGGGCCTTCTATTGGGGAACCAGTGAATGGTCAGCT

Basic information

species Arabidopsis thaliana
transcript AT1G04690.1
intron # 1
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|125012758|gb|EL085027.1|EL085027
EST:     CTATTGCCACAG                         GCCGGATGCTTCAACTCCTATCGAAGAGACTGTGAGGGCGATGAACTACGT
genomic: CTATTGCCACAGgtgaccaatt ... tttattacagGCCGGATGCTTCAACTCCTATCGAAGAGACTGTGAGGGCGATGAACTACGT
EST: gi|86073698|gb|DR369455.1|DR369455
EST:     TCTCTCAAACGACTTGATATGGATTACGTTGATGTGCTCTATTGCCACAG                         GCCGGATGCTTCAACTCCTATCG
genomic: TCTCTCAAACGACTTGATATGGATTACGTTGATGTGCTCTATTGCCACAGgtgaccaatt ... tttattacagGCCGGATGCTTCAACTCCTATCG
EST: gi|125103101|gb|EL157625.1|EL157625
EST:     TGGATTACGTTGATGTGCTCTATTGCCACAG                         GCCGGATGCTTCAACTCCTATCGAAGAGACTGTGAGGGCGATGAACTACGT
genomic: TGGATTACGTTGATGTGCTCTATTGCCACAGgtgaccaatt ... tttattacagGCCGGATGCTTCAACTCCTATCGAAGAGACTGTGAGGGCGATGAACTACGT
EST: gi|47831309|gb|CK120993.1|CK120993
EST:     TCTCTCAAACGACTTGATATGGATTACGTTGATGTGCTCTATTGCCACAG                         GCCGGATGCTTCAACTCCTATCGAAGAGACTGTGAGGGCGATGAACTACGT
genomic: TCTCTCAAACGACTTGATATGGATTACGTTGATGTGCTCTATTGCCACAGgtgaccaatt ... tttattacagGCCGGATGCTTCAACTCCTATCGAAGAGACTGTGAGGGCGATGAACTACGT
EST: gi|124775323|gb|EH865452.1|EH865452
EST:     ATGGATTACGTTGATGTGCTCTATTGCCACAG                         GCCGGATGCTTCAACTCCTATCGAAGAGACTGTGAGGGCGATGAACTACGT
genomic: ATGGATTACGTTGATGTGCTCTATTGCCACAGgtgaccaatt ... tttattacagGCCGGATGCTTCAACTCCTATCGAAGAGACTGTGAGGGCGATGAACTACGT
EST: gi|124742535|gb|EH833697.1|EH833697
EST:     TCAAACGACTTGATATGGATTACGTTGATGTGCTCTATTGCCACAG                         GCCGGATGCTTCAACTCCTATCGAAGAGACTGTGAGGGCGATGAACTACG
genomic: TCAAACGACTTGATATGGATTACGTTGATGTGCTCTATTGCCACAGgtgaccaatt ... tttattacagGCCGGATGCTTCAACTCCTATCGAAGAGACTGTGAGGGCGATGAACTACG
EST: gi|116446909|gb|EG489501.1|EG489501
EST:     TCTATTGCCACAG                         GCCGGATGCTTCAACTCCTATCGAAGAGACTGTGAGGGCGATGAACTACGT
genomic: TCTATTGCCACAGgtgaccaatt ... tttattacagGCCGGATGCTTCAACTCCTATCGAAGAGACTGTGAGGGCGATGAACTACGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatgtttattaaaaatgtttcctttttttgtgtgaattgggtcatttattacagGCCGGATGCTTCAACTCCTATCGAAGAGACTGTGAGGGCGATGAACTACGTGATTGATAAGGGTTGGGCCTTCTATTGGGGAACCAGTGAATGGTCAGCT
     tttattaaaaatgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggcatctttgcattgatctaagtgtcactagattctttgattgacatatgtttattaaaaatgtttcctttttttgtgtgaattgggtcatttattacagGCCGGATGCTTCAACTCCTATCGAAGAGACTGTGAGGGCGATGAACTACGTGATTGATAAGGGTTGGGCCTTCTATTGGGGAACCAGTGAATGGTCAGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - -attaaaa