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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAATCTTATCGATGAACAGTTCAATTGTATTACCAACGGAAGACCAGACAAAGATTTCCAGAAATTGAAGTGGAAACCTAAGAAATGTAGTTTACCAAGgttagttttggtcggaacagttctcaaaatttaatatttagccttaaggctctgaaatctaataatagatcaatatgtgaag

Basic information

species Arabidopsis thaliana
transcript AT5G06700.1
intron # 1
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|125298652|gb|EL312737.1|EL312737
EST:     AAAGATTTCCAGAAATTGAAGTGGAAACCTAAGAAATGTAGTTTACCAAG                         GTTAAATGGAGCTATATTGTTGGAGA
genomic: AAAGATTTCCAGAAATTGAAGTGGAAACCTAAGAAATGTAGTTTACCAAGgttagttttg ... atatgtgaagGTTAAATGGAGCTATATTGTTGGAGA
EST: gi|164093269|gb|ES052298.1|ES052298
EST:     AAAGATTTCCAGAAATTGAAGTGGAAACCTAAGAAATGTAGTTTACCAAG                         GTTAAATGGAGCTATATTGTTGGAGATGCTTAGAGGAAGAAGACTTGTCTT
genomic: AAAGATTTCCAGAAATTGAAGTGGAAACCTAAGAAATGTAGTTTACCAAGgttagttttg ... atatgtgaagGTTAAATGGAGCTATATTGTTGGAGATGCTTAGAGGAAGAAGACTTGTCTT
EST: gi|164136565|gb|EL969980.1|EL969980
EST:     AAAGATTTCCAGAAATTGAAGTGGAAACCTAAGAAATGTAGTTTACCAAG                         GTTAAATGGAGCTATATTG
genomic: AAAGATTTCCAGAAATTGAAGTGGAAACCTAAGAAATGTAGTTTACCAAGgttagttttg ... atatgtgaagGTTAAATGGAGCTATATTG
EST: gi|164153246|gb|EL999708.1|EL999708
EST:     AAGATTTTCCAGAAATTGAAGTGGAAACCTAAGAAATGTAGTTTACCAAG                         GTTAAATGGAGCTATATTG
genomic: AAGA-TTTCCAGAAATTGAAGTGGAAACCTAAGAAATGTAGTTTACCAAGgttagttttg ... atatgtgaagGTTAAATGGAGCTATATTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTAATCTTATCGATGAACAGTTCAATTGTATTACCAACGGAAGACCAGACAAAGATTTCCAGAAATTGAAGTGGAAACCTAAGAAATGTAGTTTACCAAGgttagttttggtcggaacagttctcaaaatttaatatttagccttaaggctctgaaatctaataatagatcaatatgtgaag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA