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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTTCTCTCTCTCCGGCTTCGTTGACCTCGATTCATCAACCTAGGGTTTCTCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttctcactattcctttttcgattttggttattaacttgtctttgattcgtgctcgttggtggattttgagaactgattattgatttgtgcgag...

Basic information

species Arabidopsis thaliana
transcript AT4G03520.1
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|86075964|gb|DR371721.1|DR371721
EST:     TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
genomic: TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
EST: gi|125315872|gb|EL329957.1|EL329957
EST:     TCGATTACGAAGAGCCGTCGTCTGTG-AGCTCAGGAAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAG
genomic: TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAG
EST: gi|124906902|gb|EH980982.1|EH980982
EST:     AGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
genomic: AGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
EST: gi|164098267|gb|ES191248.1|ES191248
EST:     GAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
genomic: GAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
EST: gi|125254257|gb|EL268342.1|EL268342
EST:     TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACA
genomic: TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACA
EST: gi|124711628|gb|EH803030.1|EH803030
EST:     TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGACTCTCTA
genomic: TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGACTCTCTA
EST: gi|125070205|gb|EL135706.1|EL135706
EST:     AGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
genomic: AGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
EST: gi|164093987|gb|ES125821.1|ES125821
EST:     TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGACTCT
genomic: TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGACTCT
EST: gi|116477264|gb|EG519856.1|EG519856
EST:     TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
genomic: TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
EST: gi|124779944|gb|EH869887.1|EH869887
EST:     CTCAGGAAACTACTACCGATA                         TTCAAGTGGTTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACT
genomic: CTCAGGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGG-TCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACT
EST: gi|301502593|gb|HO208133.1|HO208133
EST:     TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
genomic: TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
EST: gi|124837678|gb|EH922117.1|EH922117
EST:     CGTCTGTGAAGCTCAGGAAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAAGCAACT
genomic: CGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAA-GCAACT
EST: gi|116477263|gb|EG519855.1|EG519855
EST:     TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
genomic: TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
EST: gi|124947590|gb|EL023416.1|EL023416
EST:     TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGA
genomic: TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGA
EST: gi|125117264|gb|EL166477.1|EL166477
EST:     TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTT
genomic: TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTT
EST: gi|125301946|gb|EL316031.1|EL316031
EST:     TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGACTCTCTA
genomic: TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGACTCTCTA
EST: gi|125163497|gb|EL190267.1|EL190267
EST:     AAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
genomic: AAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
EST: gi|164034872|gb|ES128042.1|ES128042
EST:     GGAAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
genomic: GGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
EST: gi|125098666|gb|EL154724.1|EL154724
EST:     AAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
genomic: AAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
EST: gi|125078288|gb|EL140736.1|EL140736
EST:     TTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
genomic: TTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
EST: gi|47829038|gb|CK118722.1|CK118722
EST:     TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
genomic: TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTTCTTAAAGCAACTG
EST: gi|124988463|gb|EL060847.1|EL060847
EST:     TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATA                         TTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTT
genomic: TCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttc ... gatcctgcagTTCAAGTGGTCAATGACTCGACATGGGACTCTCTAGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTTCTCTCTCTCCGGCTTCGTTGACCTCGATTCATCAACCTAGGGTTTCTCGATTACGAAGAGCCGTCGTCTGTGAAGCTCAGGAAACTACTACCGATAgtatgttttctcactattcctttttcgattttggttattaacttgtctttgattcgtgctcgttggtggattttgagaactgattattgatttgtgcgag

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctcacta