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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGTTTGTTGTTCAAGGATCGAGATTTCGTGGAGCTCTCTATTCGCAGCTTGGAGATTGGACTTGTTTGAATTGgtaacaatattgtgtctggcctctaatgtcgttgtactcatgtttgtttttatttgttcgggactttttaatcattacttaaatttccgttttatttag

Basic information

species Arabidopsis thaliana
transcript AT5G48385.1
intron # 2
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|116464473|gb|EG507065.1|EG507065
EST:     TTTCGTGGAGCTCTCTATTCGCAGCTTGGAGATTGGACTTGTTTGAATTG                         GCTCTTTTGTGATGGAGGATACTCGGTCAGTTGCTTCACTCATGGACTCTA
genomic: TTTCGTGGAGCTCTCTATTCGCAGCTTGGAGATTGGACTTGTTTGAATTGgtaacaatat ... ttttatttagGCTCTTTTGTGATGGAGGATACTCGGTCAGTTGCTTCACTCATGGACTCTA
EST: gi|116464506|gb|EG507098.1|EG507098
EST:     TTTCGTGGAGCTCTCTATTCGCAGCTTGGAGATTGGACTTGTTTGAATTG                         GCTCTTTTGTGATGGAGGATACTCGGTCAGTTGCTTCACTCATGGACTCTA
genomic: TTTCGTGGAGCTCTCTATTCGCAGCTTGGAGATTGGACTTGTTTGAATTGgtaacaatat ... ttttatttagGCTCTTTTGTGATGGAGGATACTCGGTCAGTTGCTTCACTCATGGACTCTA
EST: gi|116436739|gb|EG479331.1|EG479331
EST:     TTTCGTGGAGCTCTCTATTCGCAGCTTGGAGATTGGACTTGTTTGAATTG                         GCTCTTTTGTGATGGAGGATACTCGGTCAGTTGCTTCACTCATGGACTCTA
genomic: TTTCGTGGAGCTCTCTATTCGCAGCTTGGAGATTGGACTTGTTTGAATTGgtaacaatat ... ttttatttagGCTCTTTTGTGATGGAGGATACTCGGTCAGTTGCTTCACTCATGGACTCTA
EST: gi|116436761|gb|EG479353.1|EG479353
EST:     TTTCGTGGAGCTCTCTATTCGCAGCTTGGAGATTGGACTTGTTTGAATTG                         GCTCTTTTGTGATGGAGGATACTCGGTCAGTTGCTTCACTCATGGACTCTA
genomic: TTTCGTGGAGCTCTCTATTCGCAGCTTGGAGATTGGACTTGTTTGAATTGgtaacaatat ... ttttatttagGCTCTTTTGTGATGGAGGATACTCGGTCAGTTGCTTCACTCATGGACTCTA
EST: gi|116436695|gb|EG479287.1|EG479287
EST:     TTTCGTGGAGCTCTCTATTCGCAGCTTGGAGATTGGACTTGTTTGAATTG                         GCTCTTTTGTGATGGAGGATACTCGGTCAGTTGCTTCACTCATGGACTCTA
genomic: TTTCGTGGAGCTCTCTATTCGCAGCTTGGAGATTGGACTTGTTTGAATTGgtaacaatat ... ttttatttagGCTCTTTTGTGATGGAGGATACTCGGTCAGTTGCTTCACTCATGGACTCTA
EST: gi|124959344|gb|EL034048.1|EL034048
EST:     AGCTCTCTATTCGCAGCTTGGAGATTGGACTTGTTTTGAATTG                         GCTCTTTTGTGATGGAGGATACTCGGTCAGTTGCTTCACTCATGGACTCT
genomic: AGCTCTCTATTCGCAGCTTGGAGATTGGACTTG-TTTGAATTGgtaacaatat ... ttttatttagGCTCTTTTGTGATGGAGGATACTCGGTCAGTTGCTTCACTCATGGACTCT
EST: gi|116436717|gb|EG479309.1|EG479309
EST:     TTTCGTGGAGCTCTCTATTCGCAGCTTGGAGATTGGACTTGTTTGAATTG                         GCTCTTTTGTGATGGAGGATACTCGGTCAGTTGCTTCACTCATGGACTCTA
genomic: TTTCGTGGAGCTCTCTATTCGCAGCTTGGAGATTGGACTTGTTTGAATTGgtaacaatat ... ttttatttagGCTCTTTTGTGATGGAGGATACTCGGTCAGTTGCTTCACTCATGGACTCTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGTTTGTTGTTCAAGGATCGAGATTTCGTGGAGCTCTCTATTCGCAGCTTGGAGATTGGACTTGTTTGAATTGgtaacaatattgtgtctggcctctaatgtcgttgtactcatgtttgtttttatttgttcgggactttttaatcattacttaaatttccgttttatttag

- - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT