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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCTTCCTTTTGATTAATTTAGTGTTTGACAATCTCCTCCTCCTTCTCCTTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAGgtaggcttttgtgtccatcactcattttcgctcgtttggttaagcttcatctgccatgtggttcactgttttgatacttttgggctcttatacctaatgt...

Basic information

species Arabidopsis thaliana
transcript AT5G17230.1
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|86027952|gb|DR323705.1|DR323705
EST:     TCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAG                         GAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGNNNN
genomic: TCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAGgtaggctttt ... caatttgcagGAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGAAAA
EST: gi|86027953|gb|DR323706.1|DR323706
EST:     TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAG                         GAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGNNNN
genomic: TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAGgtaggctttt ... caatttgcagGAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGAAAA
EST: gi|86027950|gb|DR323703.1|DR323703
EST:     TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAG                         GAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGNNNN
genomic: TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAGgtaggctttt ... caatttgcagGAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGAAAA
EST: gi|124887277|gb|EH966179.1|EH966179
EST:     TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAG                         GAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTT
genomic: TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAGgtaggctttt ... caatttgcagGAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTT
EST: gi|86027944|gb|DR323697.1|DR323697
EST:     TCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAG                         GAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGNNNN
genomic: TCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAGgtaggctttt ... caatttgcagGAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGAAAA
EST: gi|86027949|gb|DR323702.1|DR323702
EST:     TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAG                         GAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGNNNN
genomic: TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAGgtaggctttt ... caatttgcagGAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGAAAA
EST: gi|124905283|gb|EH979363.1|EH979363
EST:     TCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAAG                         GAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTC
genomic: TCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAA-Ggtaggctttt ... caatttgcagGAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTC
EST: gi|116476475|gb|EG519067.1|EG519067
EST:     TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAG                         GAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGNNNN
genomic: TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAGgtaggctttt ... caatttgcagGAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGAAAA
EST: gi|116471975|gb|EG514567.1|EG514567
EST:     TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAG                         GAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGNNNN
genomic: TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAGgtaggctttt ... caatttgcagGAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGAAAA
EST: gi|86027948|gb|DR323701.1|DR323701
EST:     TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAG                         GAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGNNNN
genomic: TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAGgtaggctttt ... caatttgcagGAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGAAAA
EST: gi|86027951|gb|DR323704.1|DR323704
EST:     TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAG                         GAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGNNNN
genomic: TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAGgtaggctttt ... caatttgcagGAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGAAAA
EST: gi|86027947|gb|DR323700.1|DR323700
EST:     TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAG                         GAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGNNNN
genomic: TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAGgtaggctttt ... caatttgcagGAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGAAAA
EST: gi|116448338|gb|EG490930.1|EG490930
EST:     TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAG                         GAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGNNNN
genomic: TTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAGgtaggctttt ... caatttgcagGAAAGCTTTAGTCTTTTACCAGTTTGATCCAATTCTGGGTTTCACTGAAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTCTTCCTTTTGATTAATTTAGTGTTTGACAATCTCCTCCTCCTTCTCCTTCTTCTTCAAAGTTTTGTCGCAGTATCTATTGTTCTTACAGAGAGAAAGgtaggcttttgtgtccatcactcattttcgctcgtttggttaagcttcatctgccatgtggttcactgttttgatacttttgggctcttatacctaatgt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttcgctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcttcatc