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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cactttgatgtctgaagtatggaaaatcaatatctcagacttgaaaatgtgggtttctattgttgacttcgaaactatgttgttgtggtgttgcaaacagATATAGCCATCCAGTGTGCTCAGAGCAAATGGCTGTGACGGTGCAAGGTCAGTCCCAACAAGGAAACGGCTACATCCCTGGCTGGATGCTGTGAGCGATA

Basic information

species Arabidopsis thaliana
transcript AT3G02310.1
intron # 6
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|164114310|gb|ES152034.1|ES152034
EST:     TCTCAGGGACTATACCAATCTCTTGAATGTGATCCCACTTTGCAAATTGG                         ATAATAGCCATCCAGTGTGC
genomic: TCTCAGGGACTATACCAATCTCTTGAATGTGATCCCACTTTGCAAATTGGgtaaatcaaa ... ttgcaaacagATA-TAGCCATCCAGTGTGC
EST: gi|164030142|gb|ES114316.1|ES114316
EST:     CCCACTTTGCAAATTGG                         ATATAGCCATCCAGTGTGCTCAGAGCAAATGGCTGTGACGGTGCAAGGTCA
genomic: CCCACTTTGCAAATTGGgtaaatcaaa ... ttgcaaacagATATAGCCATCCAGTGTGCTCAGAGCAAATGGCTGTGACGGTGCAAGGTCA
EST: gi|164045945|gb|ES145630.1|ES145630
EST:     TCTCAGGGACTATACCAATCTCTTGAATGTGATCCCACTTTGCAAATTGG                         ATATAGCCATCCAGTGTGCT
genomic: TCTCAGGGACTATACCAATCTCTTGAATGTGATCCCACTTTGCAAATTGGgtaaatcaaa ... ttgcaaacagATATAGCCATCCAGTGTGCT
EST: gi|164138550|gb|ES071814.1|ES071814
EST:     TCTCAGGGACTATACCAATCTCTTGAATGTGATCCCACTTTGCAAATTGG                         ATATAGCCATCCAGTGTGCTC
genomic: TCTCAGGGACTATACCAATCTCTTGAATGTGATCCCACTTTGCAAATTGGgtaaatcaaa ... ttgcaaacagATATAGCCATCCAGTGTGCTC
EST: gi|164110755|gb|ES063222.1|ES063222
EST:     TCTCAGGGACTATACCAATCTCTTGAATGTGATCCCACTTTGCAAATTGG                         ATATAGCCATCCAGTGTGC
genomic: TCTCAGGGACTATACCAATCTCTTGAATGTGATCCCACTTTGCAAATTGGgtaaatcaaa ... ttgcaaacagATATAGCCATCCAGTGTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgtgggtttctattgttgacttcgaaactatgttgttgtggtgttgcaaacagATATAGCCATCCAGTGTGCTCAGAGCAAATGGCTGTGACGGTGCAAGGTCAGTCCCAACAAGGAAACGGCTACATCCCTGGCTGGATGCTGTGAGCGATA
               tgttgac  putative branch site (score: 3)
        tttctatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cactttgatgtctgaagtatggaaaatcaatatctcagacttgaaaatgtgggtttctattgttgacttcgaaactatgttgttgtggtgttgcaaacagATATAGCCATCCAGTGTGCTCAGAGCAAATGGCTGTGACGGTGCAAGGTCAGTCCCAACAAGGAAACGGCTACATCCCTGGCTGGATGCTGTGAGCGATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - -aaatcaa
- - - - - - - - - - - - - - - - -ctcagac
- - - - - - - - - - - - - - - - - - - - - gaaaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaacta