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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATACTTCAGTCTAGAGCCGCGCAAGAAGACGATTCTCTCTgtgagttttcgctcctctctacttgtcgtctctctgattatcttcgttgctactgtctcgttttgtgtataagtagggttcttgcttgttttctctcatc...

Basic information

species Arabidopsis thaliana
transcript AT3G49010.5
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|164064526|gb|ES178509.1|ES178509
EST:     ATATACTTCAGTCTAGAGCCGCGCAAGAAGACGATTCTCTCT                         CTTGAGTTGAAGAAA
genomic: ATATACTTCAGTCTAGAGCCGCGCAAGAAGACGATTCTCTCTgtgagttttc ... tttttggcagCTTGAGTTGAAGAAA
EST: gi|164117532|gb|ES089281.1|ES089281
EST:     AGTCTAGAGCCGCGCAAGAAGACGATTCTCTCT                         CTTGAGTTGAAGAAATGAAGCACAACAATGTTA
genomic: AGTCTAGAGCCGCGCAAGAAGACGATTCTCTCTgtgagttttc ... tttttggcagCTTGAGTTGAAGAAATGAAGCACAACAATGTTA
EST: gi|164120754|gb|ES043470.1|ES043470
EST:     AGTCTAGAGCCGCGCAAGAAGACGATTCTCTCT                         CTTGAGTTGAAGAAATGAAGCACAAACAATGTTA
genomic: AGTCTAGAGCCGCGCAAGAAGACGATTCTCTCTgtgagttttc ... tttttggcagCTTGAGTTGAAGAAATGAAGCACAA-CAATGTTA
EST: gi|125120924|gb|EL168391.1|EL168391
EST:     TTCAGTCTAGAGCCGCGCAAGAAGACGATTCTCTCT                         CTTGAGTTGAAGAAATGAAGCACAACAA
genomic: TTCAGTCTAGAGCCGCGCAAGAAGACGATTCTCTCTgtgagttttc ... tttttggcagCTTGAGTTGAAGAAATGAAGCACAACAA
EST: gi|164156091|gb|EL998300.1|EL998300
EST:     ATACTTCAGTCTAGAGCCGCGCAAGAAGACGATTCTCTCT                         CTTGAGTTGAAGAAATGAAGCACAAC
genomic: ATACTTCAGTCTAGAGCCGCGCAAGAAGACGATTCTCTCTgtgagttttc ... tttttggcagCTTGAGTTGAAGAAATGAAGCACAAC
EST: gi|152037762|gb|BP796635.2|BP796635
EST:     ACTTCAGTCTAGAGCCGCGCAAGAAGACGATTCTCTCT                         CTTGAGTTGAAGAAATGAAGCACAACAATGTTATCCCCAATGGTCACTTCA
genomic: ACTTCAGTCTAGAGCCGCGCAAGAAGACGATTCTCTCTgtgagttttc ... tttttggcagCTTGAGTTGAAGAAATGAAGCACAACAATGTTATCCCCAATGGTCACTTCA
EST: gi|125316532|gb|EL330617.1|EL330617
EST:     ATACTTCAGTCCAGAGCCGCGCAAGAAGACGATTCTCTCT                         CTTGAGTTGAAGAAATGAAGCACAACAATGTTA
genomic: ATACTTCAGTCTAGAGCCGCGCAAGAAGACGATTCTCTCTgtgagttttc ... tttttggcagCTTGAGTTGAAGAAATGAAGCACAACAATGTTA
EST: gi|164170667|gb|ES183236.1|ES183236
EST:     GACGATTCTCTCT                         CTTGAGTTGAAGAAATGAAGCACAACAATGTTATCCCCAATGGTCACTTCA
genomic: GACGATTCTCTCTgtgagttttc ... tttttggcagCTTGAGTTGAAGAAATGAAGCACAACAATGTTATCCCCAATGGTCACTTCA
EST: gi|124986002|gb|EL058552.1|EL058552
EST:     AGAGCCGCGCAAGAAGACGATTCTCTCT                         CTTGAGTTGAAGAAATGAAGCACAACAATGTTATCCCCAA
genomic: AGAGCCGCGCAAGAAGACGATTCTCTCTgtgagttttc ... tttttggcagCTTGAGTTGAAGAAATGAAGCACAACAATGTTATCCCCAA
EST: gi|125088344|gb|EL147143.1|EL147143
EST:     AGTCTAGTAGCCGCGCAAGAAGACGATTCTCTCT                         CTTGAGTTGAAGAAATGAAGCACAACAATGTTATCCCCAATGGT
genomic: AGTCTAG-AGCCGCGCAAGAAGACGATTCTCTCTgtgagttttc ... tttttggcagCTTGAGTTGAAGAAATGAAGCACAACAATGTTATCCCCAATGGT
EST: gi|164089305|gb|ES070466.1|ES070466
EST:     ACGATTCTCTCT                         CTTGAGTTGAAGAAATGAAGCACAACAATGTTATCCCCAATGGTCACTTCA
genomic: ACGATTCTCTCTgtgagttttc ... tttttggcagCTTGAGTTGAAGAAATGAAGCACAACAATGTTATCCCCAATGGTCACTTCA
EST: gi|125247445|gb|EL261530.1|EL261530
EST:     AGTCTAGAGCCGCGCAAGAAGACGATTCTCTCT                         CTTGAGTTGAAGAAATGAAGCACAACAATGTTAT
genomic: AGTCTAGAGCCGCGCAAGAAGACGATTCTCTCTgtgagttttc ... tttttggcagCTTGAGTTGAAGAAATGAAGCACAACAATGTTAT
EST: gi|164200502|gb|EL978883.1|EL978883
EST:     ACTTCAGTCTAGAGCCGCGCAAGAAGACGATTCTCTCT                         CTTGAGTTGAAGAAATGAAGCACAACAA
genomic: ACTTCAGTCTAGAGCCGCGCAAGAAGACGATTCTCTCTgtgagttttc ... tttttggcagCTTGAGTTGAAGAAATGAAGCACAACAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATATACTTCAGTCTAGAGCCGCGCAAGAAGACGATTCTCTCTgtgagttttcgctcctctctacttgtcgtctctctgattatcttcgttgctactgtctcgttttgtgtataagtagggttcttgcttgttttctctcatc

- - - - - - - - - - - GCAAGA
- - - - - - - - - - - - AAGAAG