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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtaatcaataatctttagttacttcaacatgtaattacttctatattgaccgtatttaattgattttacagTACTCAATGTTCGGGTCGATCTTGACATTAGGAGGCTTGATCGGTGCAGTATTCAGCGGTAAAGTCGCTGATGTCTTGGGAAGAAAACGG

Basic information

species Arabidopsis thaliana
transcript AT1G08930.2
intron # 2
splice site 3'
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|125080471|gb|EL142056.1|EL142056
EST:     CGGGTGCACAAGCAGGGATTACCAAAGATTTATCTCTCTCCGTTGCAGAA                         TACTCAATGTTCGGGTCGATCTTGACATTAGGAGGCTTGATCGG
genomic: CGGGTGCACAAGCAGGGATTACCAAAGATTTATCTCTCTCCGTTGCAGAAgtatgtaatc ... gattttacagTACTCAATGTTCGGGTCGATCTTGACATTAGGAGGCTTGATCGG
EST: gi|125080621|gb|EL142154.1|EL142154
EST:     CGGGTGCACAAGCAGGGATTACCAAAGATTTATCTCTCTCCGTTGCAGAA                         TACTCAATGTTCGGGTCGATCTTGACATTAGGAGGCTTGATCGGTG
genomic: CGGGTGCACAAGCAGGGATTACCAAAGATTTATCTCTCTCCGTTGCAGAAgtatgtaatc ... gattttacagTACTCAATGTTCGGGTCGATCTTGACATTAGGAGGCTTGATCGGTG
EST: gi|124929784|gb|EL007299.1|EL007299
EST:     CGGGTGCACAAGCAGGGATTACCAAAGATTTATCTCTCTCCGTTGCAGAA                         TACTCAATGTTCGGGTCGATCTTGACATTAGGAGGCT
genomic: CGGGTGCACAAGCAGGGATTACCAAAGATTTATCTCTCTCCGTTGCAGAAgtatgtaatc ... gattttacagTACTCAATGTTCGGGTCGATCTTGACATTAGGAGGCT
EST: gi|124906569|gb|EH980649.1|EH980649
EST:     CTCTCTCCGTTGCAGAA                         TACTCAATGTTCGGGTCGATCTTGACATTAGGAGGCTTGATCGGTGCAG
genomic: CTCTCTCCGTTGCAGAAgtatgtaatc ... gattttacagTACTCAATGTTCGGGTCGATCTTGACATTAGGAGGCTTGATCGGTGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttacttcaacatgtaattacttctatattgaccgtatttaattgattttacagTACTCAATGTTCGGGTCGATCTTGACATTAGGAGGCTTGATCGGTGCAGTATTCAGCGGTAAAGTCGCTGATGTCTTGGGAAGAAAACGG
                                    tatttaattgatttta  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtaatcaataatctttagttacttcaacatgtaattacttctatattgaccgtatttaattgattttacagTACTCAATGTTCGGGTCGATCTTGACATTAGGAGGCTTGATCGGTGCAGTATTCAGCGGTAAAGTCGCTGATGTCTTGGGAAGAAAACGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA