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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTACCTCCGGTGGCCCCATACCCTTCACCGAAGCATTTCACGATTACAACCGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAAgtgagtggatgctactcttctttagttgttctttatccatatcaatataacatatttatgatcagtcaatcattcaaaacgttcttgtttctag

Basic information

species Arabidopsis thaliana
transcript AT5G25980.2
intron # 11
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|47827929|gb|CK117613.1|CK117613
EST:     CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAA                         GGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
genomic: CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAAgtgagtggat ... ttgtttctagGGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
EST: gi|116446271|gb|EG488863.1|EG488863
EST:     CGGATTGATTATCTCTGCAGTCACCTATGTTTTCTCCGCAAGGCCATCAA                         GGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
genomic: CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAAgtgagtggat ... ttgtttctagGGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
EST: gi|124986436|gb|EL058958.1|EL058958
EST:     CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAA                         GGAGAAGCGTGTCAAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATA
genomic: CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAAgtgagtggat ... ttgtttctagGGAGAAGCGTGTCAA-CGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATA
EST: gi|124996292|gb|EL068561.1|EL068561
EST:     CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAA                         GGAGAAGCGTGTCAACGTGAAAGGA
genomic: CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAAgtgagtggat ... ttgtttctagGGAGAAGCGTGTCAACGTGAAAGGA
EST: gi|116446304|gb|EG488896.1|EG488896
EST:     CGGATTGATTATCTCTGCAGTCACCTATGTTTTCTCCGCAAGGCCATCAA                         GGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
genomic: CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAAgtgagtggat ... ttgtttctagGGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
EST: gi|125058734|gb|EL127411.1|EL127411
EST:     GATTGATTATCTCTGCTAGTTCATCTATGTTTTCTCCGCAAGGCCATCAA                         GGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGG
genomic: GATTGATTATCTCTGC-AG-TCATCTATGTTTTCTCCGCAAGGCCATCAAgtgagtggat ... ttgtttctagGGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGG
EST: gi|125250547|gb|EL264632.1|EL264632
EST:     TTTCTCCGCAAGGCCATCAA                         GGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
genomic: TTTCTCCGCAAGGCCATCAAgtgagtggat ... ttgtttctagGGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
EST: gi|116446415|gb|EG489007.1|EG489007
EST:     CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAA                         GGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
genomic: CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAAgtgagtggat ... ttgtttctagGGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
EST: gi|116446282|gb|EG488874.1|EG488874
EST:     CGGATTGATTATCTCTGCAGTCACCTATGTTTTCTCCGCAAGGCCATCAA                         GGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
genomic: CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAAgtgagtggat ... ttgtttctagGGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
EST: gi|124859299|gb|EH943736.1|EH943736
EST:     TCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAA                         GGAGAAGCGTGTCAACGTGA
genomic: TCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAAgtgagtggat ... ttgtttctagGGAGAAGCGTGTCAACGTGA
EST: gi|116444210|gb|EG486802.1|EG486802
EST:     CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAA                         GGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
genomic: CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAAgtgagtggat ... ttgtttctagGGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
EST: gi|124955425|gb|EL030439.1|EL030439
EST:     GGATTGATTATCTCTGCAGTCATCTATTGTTTTCTCCGCAAGGCCATCAA                         GGAGAAGCGTGTCAACGTGAAAGGATACTTT
genomic: GGATTGATTATCTCTGCAGTCATCTA-TGTTTTCTCCGCAAGGCCATCAAgtgagtggat ... ttgtttctagGGAGAAGCGTGTCAACGTGAAAGGATACTTT
EST: gi|116446426|gb|EG489018.1|EG489018
EST:     CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAA                         GGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
genomic: CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAAgtgagtggat ... ttgtttctagGGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
EST: gi|116439131|gb|EG481723.1|EG481723
EST:     CGGATTGATTATCTCTGCAGTCATTTATGTTTTTTCCGCAAGGCCATCAA                         GGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTTTCTTGGGGATAA
genomic: CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAAgtgagtggat ... ttgtttctagGGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
EST: gi|124911914|gb|EH985994.1|EH985994
EST:     CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAA                         GGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGAT
genomic: CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAAgtgagtggat ... ttgtttctagGGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGAT
EST: gi|116446293|gb|EG488885.1|EG488885
EST:     CGGATTGATTATCTCTGCAGTCACCTATGTTTTCTCCGCAAGGCCATCAA                         GGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
genomic: CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAAgtgagtggat ... ttgtttctagGGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
EST: gi|124905911|gb|EH979991.1|EH979991
EST:     CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAA                         GGAGAAGCGTGTCAACGTGAA
genomic: CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAAgtgagtggat ... ttgtttctagGGAGAAGCGTGTCAACGTGAA
EST: gi|125127860|gb|EL172485.1|EL172485
EST:     TTTTCTCCGNAAGGCCATCGA                         GGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
genomic: TTTTCTCCGCAAGGCCATCAAgtgagtggat ... ttgtttctagGGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
EST: gi|116439047|gb|EG481639.1|EG481639
EST:     CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAA                         GGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA
genomic: CGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAAgtgagtggat ... ttgtttctagGGAGAAGCGTGTCAACGTGAAAGGATACTTTGTTTGGTCTCTTGGGGATAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTACCTCCGGTGGCCCCATACCCTTCACCGAAGCATTTCACGATTACAACCGGATTGATTATCTCTGCAGTCATCTATGTTTTCTCCGCAAGGCCATCAAgtgagtggatgctactcttctttagttgttctttatccatatcaatataacatatttatgatcagtcaatcattcaaaacgttcttgtttctag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG