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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATGTAGTGTTGAATGCGGTGTTGCAGCTGATTCTGTACACTAAGGAGAAGAATGCGATTTTGTTCACCTATCCTCCTGAGgtttggtctctgactatttagaaaagttatttcattgagaagtttcgtggtttgggctacattcttgttttgtctatgatgctacaattgtattgtattt...

Basic information

species Arabidopsis thaliana
transcript AT2G39960.1
intron # 3
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|86023934|gb|DR319687.1|DR319687
EST:     TTCTGTACACTAAGGAGAAGAATGCGATTTTGTTCACCTATCCTCCTGAG                         GGATCATTCACCAGCACTGGTTTGGTGGTATCTTCAAAGTTGCCCAGATTC
genomic: TTCTGTACACTAAGGAGAAGAATGCGATTTTGTTCACCTATCCTCCTGAGgtttggtctc ... tgatacgcagGGATCATTCACCAGCACTGGTTTGGTGGTATCTTCAAAGTTGCCCAGATTC
EST: gi|86023935|gb|DR319688.1|DR319688
EST:     TTCTGTACACTAAGGAGAAGAATGCGATTTTGTTCACCTATCCTCCTGAG                         GGATCATTCACCAGCACTGGTTTGG
genomic: TTCTGTACACTAAGGAGAAGAATGCGATTTTGTTCACCTATCCTCCTGAGgtttggtctc ... tgatacgcagGGATCATTCACCAGCACTGGTTTGG
EST: gi|86023936|gb|DR319689.1|DR319689
EST:     TTCTGTACACTAAGGAGAAGAATGCGATTTTGTTCACCTATCCTCCTGAG                         GGATCATTCACCAGCAATGGTTTGGTGGTATCTTCAAAGTTGCCCAGATTC
genomic: TTCTGTACACTAAGGAGAAGAATGCGATTTTGTTCACCTATCCTCCTGAGgtttggtctc ... tgatacgcagGGATCATTCACCAGCACTGGTTTGGTGGTATCTTCAAAGTTGCCCAGATTC
EST: gi|86076622|gb|DR372379.1|DR372379
EST:     TTCTGTACACTAAGGAGAAGAATGCGATTTTGTTCACCTATCCTCCTGAG                         GGATCATTCACCAGCACTGGTTTGGTGGTATCTTCAAAGTTGCCCAGATTC
genomic: TTCTGTACACTAAGGAGAAGAATGCGATTTTGTTCACCTATCCTCCTGAGgtttggtctc ... tgatacgcagGGATCATTCACCAGCACTGGTTTGGTGGTATCTTCAAAGTTGCCCAGATTC
EST: gi|86023930|gb|DR319683.1|DR319683
EST:     TTCTGTACACTAAGGAGAAGAATGCGATTTTGTTCACCTATCCTCCTGAG                         GGATCATTCACCAGCACTGGTTTGGTGGTATCTTCAAAGTTGCCCAGATTC
genomic: TTCTGTACACTAAGGAGAAGAATGCGATTTTGTTCACCTATCCTCCTGAGgtttggtctc ... tgatacgcagGGATCATTCACCAGCACTGGTTTGGTGGTATCTTCAAAGTTGCCCAGATTC
EST: gi|124902647|gb|EH976727.1|EH976727
EST:     GTTCACCTATCCTCCTGAG                         GGATCATTCACCAGCACTGGTTTGGTGGTATCTTCAAAGTTGCCCAGATTC
genomic: GTTCACCTATCCTCCTGAGgtttggtctc ... tgatacgcagGGATCATTCACCAGCACTGGTTTGGTGGTATCTTCAAAGTTGCCCAGATTC
EST: gi|125092372|gb|EL150195.1|EL150195
EST:     ATGCGATTTTGTTCACCTATCCTCCTGAG                         GGATCATTCACCAGCACTGGTTTGGTGGTATCTTCAAAGTTGCCCAGATTC
genomic: ATGCGATTTTGTTCACCTATCCTCCTGAGgtttggtctc ... tgatacgcagGGATCATTCACCAGCACTGGTTTGGTGGTATCTTCAAAGTTGCCCAGATTC
EST: gi|86023932|gb|DR319685.1|DR319685
EST:     TCTGTACACTAAGGAGAAGAATGCGATTTTGTTCACCTATCCCTCCTGAG                         GGATCATTCACCAGCACTGGTTTGGTGGTATC
genomic: TCTGTACACTAAGGAGAAGAATGCGATTTTGTTCACCTATCC-TCCTGAGgtttggtctc ... tgatacgcagGGATCATTCACCAGCACTGGTTTGGTGGTATC
EST: gi|124884520|gb|EH963422.1|EH963422
EST:     TTCTGTACACTAAGGAGAAGAATGCGATTTTGTTCACCTATCCTCCTGAG                         GGATCATTCACCAGCACTG
genomic: TTCTGTACACTAAGGAGAAGAATGCGATTTTGTTCACCTATCCTCCTGAGgtttggtctc ... tgatacgcagGGATCATTCACCAGCACTG
EST: gi|86023937|gb|DR319690.1|DR319690
EST:     TTCTGTACACTAAGGAGAAGAATGCGATTTTGTTCACCTATCCTCCTGAG                         GGATCATTCACCAGCACTGGTTTGGTGGTATCTTCAAAGTTGCCCAGATTC
genomic: TTCTGTACACTAAGGAGAAGAATGCGATTTTGTTCACCTATCCTCCTGAGgtttggtctc ... tgatacgcagGGATCATTCACCAGCACTGGTTTGGTGGTATCTTCAAAGTTGCCCAGATTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTATGTAGTGTTGAATGCGGTGTTGCAGCTGATTCTGTACACTAAGGAGAAGAATGCGATTTTGTTCACCTATCCTCCTGAGgtttggtctctgactatttagaaaagttatttcattgagaagtttcgtggtttgggctacattcttgttttgtctatgatgctacaattgtattgtattt

- - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agaaaagt