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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTACATTGTTCACAAGGGGTAAATCTCCTATTGCCAAACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAGgtattacatgaatccttgtaaaaaactagtatgcacactcaaatataatatacatttcagatgataggaacttggatgattaggattccaataaaataaatgatttttctcggccttttctag

Basic information

species Arabidopsis thaliana
transcript AT1G09340.1
intron # 3
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|124861278|gb|EH945715.1|EH945715
EST:     CGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAG                         ATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACT
genomic: CGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAGgtattacatg ... ccttttctagATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACT
EST: gi|125299916|gb|EL314001.1|EL314001
EST:     AACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAG                         ATTCTTCACTTGAAAGGAGACAGAAAGGA
genomic: AACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAGgtattacatg ... ccttttctagATTCTTCACTTGAAAGGAGACAGAAAGGA
EST: gi|124935897|gb|EL012846.1|EL012846
EST:     AACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAG                         ATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACTTTGTGAAGTCAAGT
genomic: AACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAGgtattacatg ... ccttttctagATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACTTTGTGAAGTCAAGT
EST: gi|125150468|gb|EL183100.1|EL183100
EST:     CTTTGCTGATTTCTCTTCTAAG                         ATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACTTTGTGAAGTCAAGT
genomic: CTTTGCTGATTTCTCTTCTAAGgtattacatg ... ccttttctagATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACTTTGTGAAGTCAAGT
EST: gi|125115686|gb|EL165543.1|EL165543
EST:     AACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAG                         ATTCTTCACTTGAAAGGAGACAGAAAGGACTA
genomic: AACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAGgtattacatg ... ccttttctagATTCTTCACTTGAAAGGAGACAGAAAGGACTA
EST: gi|125067667|gb|EL134091.1|EL134091
EST:     TTCTCTTCTAAG                         ATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACTTTGTGAAGTCAAGT
genomic: TTCTCTTCTAAGgtattacatg ... ccttttctagATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACTTTGTGAAGTCAAGT
EST: gi|125192000|gb|EL206954.1|EL206954
EST:     AACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAG                         ATTCTTCACTTGAAAGGAGACAGAAAGGACTA
genomic: AACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAGgtattacatg ... ccttttctagATTCTTCACTTGAAAGGAGACAGAAAGGACTA
EST: gi|125092884|gb|EL150679.1|EL150679
EST:     AACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAG                         ATTCTTCACTTGAAAGGA
genomic: AACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAGgtattacatg ... ccttttctagATTCTTCACTTGAAAGGA
EST: gi|125292235|gb|EL306320.1|EL306320
EST:     TTTCTCTTCTAAG                         ATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACTTTGTGAAGTCAAGT
genomic: TTTCTCTTCTAAGgtattacatg ... ccttttctagATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACTTTGTGAAGTCAAGT
EST: gi|124958122|gb|EL032891.1|EL032891
EST:     ACTTTGCTGATTTCTCTTCTAAG                         ATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACTTTGTGAAGTCAAGT
genomic: ACTTTGCTGATTTCTCTTCTAAGgtattacatg ... ccttttctagATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACTTTGTGAAGTCAAGT
EST: gi|116412032|gb|EG454624.1|EG454624
EST:     AACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAG                         ATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACTTTGTGAAGTCAAGT
genomic: AACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAGgtattacatg ... ccttttctagATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACTTTGTGAAGTCAAGT
EST: gi|125320351|gb|EL334436.1|EL334436
EST:     AACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAG                         ATTCTTCACTTGAAAGGAGACAGAAAGGACTA
genomic: AACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAGgtattacatg ... ccttttctagATTCTTCACTTGAAAGGAGACAGAAAGGACTA
EST: gi|124881240|gb|EH960142.1|EH960142
EST:     AACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAG                         ATTCTTCACTTGAAAGGAGACAGAA
genomic: AACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAGgtattacatg ... ccttttctagATTCTTCACTTGAAAGGAGACAGAA
EST: gi|124739950|gb|EH831112.1|EH831112
EST:     TTTCTCTTCTAAG                         ATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACTTTGTGAAGTCAAGT
genomic: TTTCTCTTCTAAGgtattacatg ... ccttttctagATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACTTTGTGAAGTCAAGT
EST: gi|124946121|gb|EL022070.1|EL022070
EST:     TCTGACCAAGACTTTGCTGATTTCTCTTCTAAG                         ATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACTTTGTGAAGTCAAGT
genomic: TCTGACCAAGACTTTGCTGATTTCTCTTCTAAGgtattacatg ... ccttttctagATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACTTTGTGAAGTCAAGT
EST: gi|116412031|gb|EG454623.1|EG454623
EST:     AACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAG                         ATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACTTTGTGAAGTCAAGT
genomic: AACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAGgtattacatg ... ccttttctagATTCTTCACTTGAAAGGAGACAGAAAGGACTATGACTTTGTGAAGTCAAGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTACATTGTTCACAAGGGGTAAATCTCCTATTGCCAAACAATTGCCCGGTGAATCTGACCAAGACTTTGCTGATTTCTCTTCTAAGgtattacatgaatccttgtaaaaaactagtatgcacactcaaatataatatacatttcagatgataggaacttggatgattaggattccaataaaataaatgatttttctcggccttttctag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT