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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcttgatttccttattaactcaagtttttcatgtgatctgtcagtagattggtgtttgaattatcatcagccttattcagtgattcactatattgttttctgaattctatgcctgaatcacaacatgctgatcgtttttttgttttgcagGAATTTATTGGGACAAACTGTCGCCGGAGAAGCTACGACAGATTCGAATACTAAGAGAGCTAAAGAATCGACTGGAAAAGAAGACTGGCCGTAAACTTCC

Basic information

species Arabidopsis thaliana
transcript AT1G76730.1
intron # 5
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|124935995|gb|EL012936.1|EL012936
EST:     CACTCCTACTCGAGTCATTTTCACAAACACACCAATACCAAAACCACAAG                         GAATTTATTGGGACAAACTGTCG
genomic: CACTCCTACTCGAGTCATTTTCACAAACACACCAATACCAAAACCACAAGgtcttgattt ... tgttttgcagGAATTTATTGGGACAAACTGTCG
EST: gi|86079362|gb|DR375119.1|DR375119
EST:     CACTCCTACTCGAGTCATTTTCACAAACACACCAATACCAAAACCACAAG                         GAATTTATTGGGACAAACTGTCGCCGGAGAAGCTACGACAGATTCGAATAC
genomic: CACTCCTACTCGAGTCATTTTCACAAACACACCAATACCAAAACCACAAGgtcttgattt ... tgttttgcagGAATTTATTGGGACAAACTGTCGCCGGAGAAGCTACGACAGATTCGAATAC
EST: gi|19800067|gb|AU231357.1|AU231357
EST:     CACTCCTACTCGAGTCATTTTCACAAACACACCAATACCAAAACCACAAG                         GAATTTATTGGGACAAACTGTCGCCGGAGAAGCTACGACAGATTCGAATAG
genomic: CACTCCTACTCGAGTCATTTTCACAAACACACCAATACCAAAACCACAAGgtcttgattt ... tgttttgcagGAATTTATTGGGACAAACTGTCGCCGGAGAAGCTACGACAGATTCGAATA-
EST: gi|124879049|gb|EH958486.1|EH958486
EST:     TCATTTTCACAAACACACCAATACC-AAACCACAAG                         GAATTTATTGGGACAAACTGTCGCCGGAGAAGCTACGACAGATTCGAATAC
genomic: TCATTTTCACAAACACACCAATACCAAAACCACAAGgtcttgattt ... tgttttgcagGAATTTATTGGGACAAACTGTCGCCGGAGAAGCTACGACAGATTCGAATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttctgaattctatgcctgaatcacaacatgctgatcgtttttttgttttgcagGAATTTATTGGGACAAACTGTCGCCGGAGAAGCTACGACAGATTCGAATACTAAGAGAGCTAAAGAATCGACTGGAAAAGAAGACTGGCCGTAAACTTCC
                              tgctgat  putative branch site (score: 3)
                                    tcgtttttttgtttt  CT-rich tract
                                       tttttttgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcttgatttccttattaactcaagtttttcatgtgatctgtcagtagattggtgtttgaattatcatcagccttattcagtgattcactatattgttttctgaattctatgcctgaatcacaacatgctgatcgtttttttgttttgcagGAATTTATTGGGACAAACTGTCGCCGGAGAAGCTACGACAGATTCGAATACTAAGAGAGCTAAAGAATCGACTGGAAAAGAAGACTGGCCGTAAACTTCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG