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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttctaactcctaaatagaaactcttgttttctcattatcttagttgtcttaattgacttgcatcagttaggcttctttgtcctgaggggaccctcctttatattcatcttcacacaaacttttagatggcaaagactttgctgtgatttacattattgtccatgttccagGTATCTGCTGATCAAAGAGGAAGATTGGCAATGTCCGTGGAGAGGCTTGACCAATCAAGTGACAGAATCAGGGAGAGTAGAAGACTAATGCTGGAGACAG

Basic information

species Arabidopsis thaliana
transcript AT1G26670.1
intron # 3
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|125158380|gb|EL187005.1|EL187005
EST:     CGTCTTCCCGTGAAGAGTTGATGGAATCCGGAATGGCGGATCTGCATGCA                         GTATCTGCTGATCAAAGAGGAA
genomic: CGTCTTCCCGTGAAGAGTTGATGGAATCCGGAATGGCGGATCTGCATGCAgtaagcttct ... catgttccagGTATCTGCTGATCAAAGAGGAA
EST: gi|164029511|gb|ES177789.1|ES177789
EST:     GCGGATCTGCATGCA                         GTATCTGCTGATCAAAGAGGAAGATTGGCAATGTCCGTGGAGAGGCTTGAC
genomic: GCGGATCTGCATGCAgtaagcttct ... catgttccagGTATCTGCTGATCAAAGAGGAAGATTGGCAATGTCCGTGGAGAGGCTTGAC
EST: gi|116443661|gb|EG486253.1|EG486253
EST:     CGTCTTCCCGTGAAGAGTTGATGGAATCCGGAATGGCGGATCTGCATGCA                         GTATCTGCTGATCAAAGAGGAAGATTGGCAATGTCCGTGGAGAGGCTTGAC
genomic: CGTCTTCCCGTGAAGAGTTGATGGAATCCGGAATGGCGGATCTGCATGCAgtaagcttct ... catgttccagGTATCTGCTGATCAAAGAGGAAGATTGGCAATGTCCGTGGAGAGGCTTGAC
EST: gi|125240075|gb|EL254160.1|EL254160
EST:     AATGGCGGATCTGCATGCA                         GTATCTGCTGATCAAAGAGGAAGATTGGCAATGTCCGTGGAGAGGCTTGAC
genomic: AATGGCGGATCTGCATGCAgtaagcttct ... catgttccagGTATCTGCTGATCAAAGAGGAAGATTGGCAATGTCCGTGGAGAGGCTTGAC
EST: gi|86077252|gb|DR373009.1|DR373009
EST:     CGTCTTCCCGTGAAGAGTTGATGGAATCCGGAATGGCGGATCTGCATGCA                         GTATCTGCTGATCAAAGAGGAAGATTGGCAATGTCCGTGGAGAGGCTTGAC
genomic: CGTCTTCCCGTGAAGAGTTGATGGAATCCGGAATGGCGGATCTGCATGCAgtaagcttct ... catgttccagGTATCTGCTGATCAAAGAGGAAGATTGGCAATGTCCGTGGAGAGGCTTGAC
EST: gi|125127856|gb|EL172483.1|EL172483
EST:     CGTCTCCCCGTGAAGAGTTGATGGAATCCGGAATGGCGGATCTGCATGCA                         GTATCTGCTGATCAAAGAGGAAGA
genomic: CGTCTTCCCGTGAAGAGTTGATGGAATCCGGAATGGCGGATCTGCATGCAgtaagcttct ... catgttccagGTATCTGCTGATCAAAGAGGAAGA
EST: gi|124795469|gb|EH885148.1|EH885148
EST:     CGGATCTGCATGCA                         GTATCTGCTGATCAAAGAGGAAGATTGGCAATGTCCGTGGAGAGGCTTGAC
genomic: CGGATCTGCATGCAgtaagcttct ... catgttccagGTATCTGCTGATCAAAGAGGAAGATTGGCAATGTCCGTGGAGAGGCTTGAC
EST: gi|116443658|gb|EG486250.1|EG486250
EST:     CGTCTTCCCGTGAAGAGTTGATGGAATCCGGAATGGCGGATCTGCATGCA                         GTATCTGCTGATCAAAGAGGAAGATTGGCAATGTCCGTGGAGAGGCTTGAC
genomic: CGTCTTCCCGTGAAGAGTTGATGGAATCCGGAATGGCGGATCTGCATGCAgtaagcttct ... catgttccagGTATCTGCTGATCAAAGAGGAAGATTGGCAATGTCCGTGGAGAGGCTTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaacttttagatggcaaagactttgctgtgatttacattattgtccatgttccagGTATCTGCTGATCAAAGAGGAAGATTGGCAATGTCCGTGGAGAGGCTTGACCAATCAAGTGACAGAATCAGGGAGAGTAGAAGACTAATGCTGGAGACAG
                            tgatttacattatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcttctaactcctaaatagaaactcttgttttctcattatcttagttgtcttaattgacttgcatcagttaggcttctttgtcctgaggggaccctcctttatattcatcttcacacaaacttttagatggcaaagactttgctgtgatttacattattgtccatgttccagGTATCTGCTGATCAAAGAGGAAGATTGGCAATGTCCGTGGAGAGGCTTGACCAATCAAGTGACAGAATCAGGGAGAGTAGAAGACTAATGCTGGAGACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA