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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaaacttcattctacatcatttggagatttagtttagtctgtgcgtggtttctgaattagatttgtttgttcttatggtatatagATAAAGCTACACTTCCGAATTTCTATGTTGCTGCTGGAATTGGGGGAGAGAGACAGTTCCCTCAATGGTACAAAGAGAAAG

Basic information

species Arabidopsis thaliana
transcript AT5G03630.1
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|125209418|gb|EL224372.1|EL224372
EST:     CGTCCTGCACTTAGCAAGGGATATATCCACCTCGAAA                         ATAAAGCTACACTTCCGAATTTCTATGTTGCTGCTGGAATTGGGGGAGAGA
genomic: CGTCCTGCACTTAGCAAGGGATATATCCACCTCGAAAgtaaaaactt ... tggtatatagATAAAGCTACACTTCCGAATTTCTATGTTGCTGCTGGAATTGGGGGAGAGA
EST: gi|47828725|gb|CK118409.1|CK118409
EST:     TCCTCCATATGAGCGTCCTGCACTTAGCAAGGGATATATCCACCTCGAAA                         ATAAAGCTACACTTCCGAATTTCTATGTTGCTGCTGGAATTGGGGGAGAGA
genomic: TCCTCCATATGAGCGTCCTGCACTTAGCAAGGGATATATCCACCTCGAAAgtaaaaactt ... tggtatatagATAAAGCTACACTTCCGAATTTCTATGTTGCTGCTGGAATTGGGGGAGAGA
EST: gi|124844947|gb|EH929384.1|EH929384
EST:     TATCCACCTCGAAA                         ATAAAGCTACACTTCCGAATTTCTATGTTGCTGCTGGAATTGGGGGAGAGA
genomic: TATCCACCTCGAAAgtaaaaactt ... tggtatatagATAAAGCTACACTTCCGAATTTCTATGTTGCTGCTGGAATTGGGGGAGAGA
EST: gi|125256452|gb|EL270537.1|EL270537
EST:     TCCACCTCGAAA                         ATAAAGCTACACTTCCGAATTTCTATGTTGCTGCTGGAATTGGGGGAGAGA
genomic: TCCACCTCGAAAgtaaaaactt ... tggtatatagATAAAGCTACACTTCCGAATTTCTATGTTGCTGCTGGAATTGGGGGAGAGA
EST: gi|124886509|gb|EH965411.1|EH965411
EST:     TCCTCCATATGAGCGTCCTGCACTTAGCAAGGGATATATCCACCTCGAAA                         ATAAAGCTACACTTCCGAATTTCTA
genomic: TCCTCCATATGAGCGTCCTGCACTTAGCAAGGGATATATCCACCTCGAAAgtaaaaactt ... tggtatatagATAAAGCTACACTTCCGAATTTCTA
EST: gi|124969885|gb|EL043753.1|EL043753
EST:     TCCTCCATATGAGCGTCCTGCACTTAGCAAGGGATATATCCACCTCGAAA                         ATAAAGCTACACTTCCGAATTTCTAT
genomic: TCCTCCATATGAGCGTCCTGCACTTAGCAAGGGATATATCCACCTCGAAAgtaaaaactt ... tggtatatagATAAAGCTACACTTCCGAATTTCTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtttagtctgtgcgtggtttctgaattagatttgtttgttcttatggtatatagATAAAGCTACACTTCCGAATTTCTATGTTGCTGCTGGAATTGGGGGAGAGAGACAGTTCCCTCAATGGTACAAAGAGAAAG
                                       ttcttat  CT-rich tract
                        aattagatttgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaaaacttcattctacatcatttggagatttagtttagtctgtgcgtggtttctgaattagatttgtttgttcttatggtatatagATAAAGCTACACTTCCGAATTTCTATGTTGCTGCTGGAATTGGGGGAGAGAGACAGTTCCCTCAATGGTACAAAGAGAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA