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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctttacccgaattaccatttccaattatataatgttcttttgaattggatagcaaattagcaatcataataacttatggtgtttgtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTGAGGAAGTACGCTATCAAAGTGTAGTTTCATTCTCCCAGCTCTAGCTTCT

Basic information

species Arabidopsis thaliana
transcript AT5G02610.2
intron # 4
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|125032486|gb|EL104755.1|EL104755
EST:     ATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: ATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|163980122|gb|ES148389.1|ES148389
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTAGAGAAGAAGAAGGAGA
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGT-GAGAAGAAGAAGGAGA
EST: gi|164221965|gb|ES162911.1|ES162911
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGG
EST: gi|124967739|gb|EL041753.1|EL041753
EST:     CAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGAC
genomic: CAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGAC
EST: gi|124924831|gb|EL002889.1|EL002889
EST:     GTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAG
genomic: GTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAG
EST: gi|164163384|gb|ES130292.1|ES130292
EST:     CACCAAGCATCAG                         GCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
genomic: CACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTG
EST: gi|125188044|gb|EL202998.1|EL202998
EST:     TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAG                         GCTTCGTTGAAGACAGAG
genomic: TCCGTCCCAAGAAAACACGAGCTATCCGTAGACGTCTCACCAAGCATCAGgtctttaccc ... gtggtaacagGCTTCGTTGAAGACAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaattggatagcaaattagcaatcataataacttatggtgtttgtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTGAGGAAGTACGCTATCAAAGTGTAGTTTCATTCTCCCAGCTCTAGCTTCT
                           taataac  putative branch site (score: 1)
                      aatcataataacttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctttacccgaattaccatttccaattatataatgttcttttgaattggatagcaaattagcaatcataataacttatggtgtttgtggtaacagGCTTCGTTGAAGACAGAGCGTGAGAAGAAGAAGGAGATGTATTTCCCAGTGAGGAAGTACGCTATCAAAGTGTAGTTTCATTCTCCCAGCTCTAGCTTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC