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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTCATTCCGCCTCTTGCTTCTCTTCACTCACAATCTCACAGCAAAGCCTCTCGTTGCTAGAGGAATCAAACAATGgtaaaccctagctttaatctctatctcttctcatttctcaatcgtttcttcttaatcttctcttaagaaaatcgggttttgatcttcatttcatatagaa...

Basic information

species Arabidopsis thaliana
transcript AT3G25520.2
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|125046705|gb|EL118974.1|EL118974
EST:     CCTCTCGTTGCTAGAGGAATCAAACAGTG                         GTGTTTGTGAAGTCCACCAAGTCGAATGCTTACTTCAAGAGGTACCAAGTG
genomic: CCTCTCGTTGCTAGAGGAATCAAACAATGgtaaacccta ... ttgttggtagGTGTTTGTGAAGTCCACCAAGTCGAATGCTTACTTCAAGAGGTACCAAGTG
EST: gi|125190599|gb|EL205553.1|EL205553
EST:     ACTCACAATCTCACAGCAAAGCCTCTCGTTGCTAGAGGAATCAAACAATG                         GTGTTTGTGAAGTCCACCAAGTCGAA
genomic: ACTCACAATCTCACAGCAAAGCCTCTCGTTGCTAGAGGAATCAAACAATGgtaaacccta ... ttgttggtagGTGTTTGTGAAGTCCACCAAGTCGAA
EST: gi|124771415|gb|EH861545.1|EH861545
EST:     CTCACAATCTCACAGCAAAGCCTCTCGTTGCTAGAGGAATCAAAACAATG                         GTGTTTGTGAAGT
genomic: CTCACAATCTCACAGCAAAGCCTCTCGTTGCTAGAGGAATCAAA-CAATGgtaaacccta ... ttgttggtagGTGTTTGTGAAGT
EST: gi|124791587|gb|EH881266.1|EH881266
EST:     ACTCACAATCTCACAGCAAAGCCTCTCGTTGCTAGAGGAATCAAACAATG                         GTGTTTGTGAAGTCCACCAAGTCGGATGCTTACTTCAAGAGGTACCAAGT
genomic: ACTCACAATCTCACAGCAAAGCCTCTCGTTGCTAGAGGAATCAAACAATGgtaaacccta ... ttgttggtagGTGTTTGTGAAGTCCACCAAGTCGAATGCTTACTTCAAGAGGTACCAAGT
EST: gi|164205721|gb|ES044250.1|ES044250
EST:     ACTCACAATCTCACAGCAAAGCCTCTCGTTGCTAGAGGAATCAAACAATG                         GTGTTTGTGAAGTCCACC
genomic: ACTCACAATCTCACAGCAAAGCCTCTCGTTGCTAGAGGAATCAAACAATGgtaaacccta ... ttgttggtagGTGTTTGTGAAGTCCACC
EST: gi|164042920|gb|ES113202.1|ES113202
EST:     ACTCACAATCTCACAGCAAAGCCTCTCGTTGCTAGAGGAATCAAACAATG                         GTGTTTGTGAAGTCCA
genomic: ACTCACAATCTCACAGCAAAGCCTCTCGTTGCTAGAGGAATCAAACAATGgtaaacccta ... ttgttggtagGTGTTTGTGAAGTCCA
EST: gi|124832459|gb|EH916898.1|EH916898
EST:     CTCGTTGCTAGAGGAATCAAACAATG                         GTGTTTGTGAAGTCCACCAAGTCGAATGCTTACTTCAAGAGGTACCAAGTG
genomic: CTCGTTGCTAGAGGAATCAAACAATGgtaaacccta ... ttgttggtagGTGTTTGTGAAGTCCACCAAGTCGAATGCTTACTTCAAGAGGTACCAAGTG
EST: gi|86038136|gb|DR333891.1|DR333891
EST:     ACTCACAATCTCACAGCAAAGCCTCTCGTTGCTAGAGGAATCAAACAATG                         GTGTTTGTGAAGT
genomic: ACTCACAATCTCACAGCAAAGCCTCTCGTTGCTAGAGGAATCAAACAATGgtaaacccta ... ttgttggtagGTGTTTGTGAAGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTCATTCCGCCTCTTGCTTCTCTTCACTCACAATCTCACAGCAAAGCCTCTCGTTGCTAGAGGAATCAAACAATGgtaaaccctagctttaatctctatctcttctcatttctcaatcgtttcttcttaatcttctcttaagaaaatcgggttttgatcttcatttcatatagaa

- - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccctagct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctatctct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctcaatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcttctct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagaaaa