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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTTGAGTATGTTCCCGAAACTGTATACAGAGCATCGAAGCACTATACCAAAATGAATCAGCATATGCCAATTATCTTTGTTCAGCTCTATACTTATCAGgtgagttctattagctctccggttactcgtttctagtaatctgtgtagcataaagctacaaatacataggaaatttataatttcacttatgctgattttgtcatttctgttgctttgttggatatcag

Basic information

species Arabidopsis thaliana
transcript AT4G00720.1
intron # 5
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|124792853|gb|EH882532.1|EH882532
EST:     ATCTTTGTTCAGCTCTATACTTATCTAG                         GTTTGCCGTGCGCTGAACTACTTACATCGCGTGGTTGGGGTGTGTCACCG
genomic: ATCTTTGTTCAGCTCTATACTTATC-AGgtgagttcta ... tggatatcagATTTGCCGTGCGCTGAACTACTTACATCGCGTGGTTGGGGTGTGTCACCG
EST: gi|125065990|gb|EL133021.1|EL133021
EST:     AAATGAATCAGCATATGCCAATTATCTTTGTTCAGCTCTATACTTATCAG                         ATTTGCCGTGCGCTGAACTACTTACATCGCGTGG
genomic: AAATGAATCAGCATATGCCAATTATCTTTGTTCAGCTCTATACTTATCAGgtgagttcta ... tggatatcagATTTGCCGTGCGCTGAACTACTTACATCGCGTGG
EST: gi|124917862|gb|EH991736.1|EH991736
EST:     AAATGAATCAGCATATGCCAATTATCTTTGTTCAGCTCTATACTTATCAG                         ATTTGCCGTGCGCTGA
genomic: AAATGAATCAGCATATGCCAATTATCTTTGTTCAGCTCTATACTTATCAGgtgagttcta ... tggatatcagATTTGCCGTGCGCTGA
EST: gi|125270228|gb|EL284313.1|EL284313
EST:     AATAGAATCAGCATATGCCAATTATCTTTGTTCAGCTCTATACTTATCAG                         ATTTGCCGTGCGCTGAACTACTTACATCGCGTGGTTGGGGTG
genomic: AAT-GAATCAGCATATGCCAATTATCTTTGTTCAGCTCTATACTTATCAGgtgagttcta ... tggatatcagATTTGCCGTGCGCTGAACTACTTACATCGCGTGGTTGGGGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCTTGAGTATGTTCCCGAAACTGTATACAGAGCATCGAAGCACTATACCAAAATGAATCAGCATATGCCAATTATCTTTGTTCAGCTCTATACTTATCAGgtgagttctattagctctccggttactcgtttctagtaatctgtgtagcataaagctacaaatacataggaaatttataatttcacttatgctgattttgtcatttctgttgctttgttggatatcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC