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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaagtgtttgattcttatgacctacttttgcagctaattccataaccagtttcaattttattctgattctatatggatttggcttataacagaatttgtatatgtctgcagGTTGTGGATAATCTAAATCTTACTGGTTTAGACCGCGCTTACGTATGTTCAGCTATATCCCCAACAAAGGTTTTCCTTACTCATTGCGCATTGAAGCTTA

Basic information

species Arabidopsis thaliana
transcript AT3G23620.1
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|86042775|gb|DR338530.1|DR338530
EST:     CAGAGCTTAAGCATCTCAAAGAAGTCCTCACTGATCTTTTTCGTGGCGAG                         GTTGTGGATAAT
genomic: CAGAGCTTAAGCATCTCAAAGAAGTCCTCACTGATCTTTTTCGTGGCGAGgtgaagtgtt ... atgtctgcagGTTGTGGATAAT
EST: gi|86042794|gb|DR338549.1|DR338549
EST:     CAGAGCTTAAGCATCTNNNNGAAGTCCTCACTGATCTTTTTCGTGGCGAG                         GTTGTGGATAATCTAAATCTTACTGGTTTAGACCGCGCTTACGTATGTTCA
genomic: CAGAGCTTAAGCATCTCAAAGAAGTCCTCACTGATCTTTTTCGTGGCGAGgtgaagtgtt ... atgtctgcagGTTGTGGATAATCTAAATCTTACTGGTTTAGACCGCGCTTACGTATGTTCA
EST: gi|86042772|gb|DR338527.1|DR338527
EST:     CAGAGCTTAAGCATCTCAAAGAAGTCCTCACTGATCTTTTTCGTGGCGAG                         GTTGTGGATAATCTAAATCTTACTGGTTTAGACCGCGCTTACGTATGTTCA
genomic: CAGAGCTTAAGCATCTCAAAGAAGTCCTCACTGATCTTTTTCGTGGCGAGgtgaagtgtt ... atgtctgcagGTTGTGGATAATCTAAATCTTACTGGTTTAGACCGCGCTTACGTATGTTCA
EST: gi|125006771|gb|EL079040.1|EL079040
EST:     TCTTTTTCGTGGCGAG                         GTTGTGGATAATCTAAATTCTTACTGGTTTAGACCGCGCTTACGTATGTTC
genomic: TCTTTTTCGTGGCGAGgtgaagtgtt ... atgtctgcagGTTGTGGATAATCTAAA-TCTTACTGGTTTAGACCGCGCTTACGTATGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttattctgattctatatggatttggcttataacagaatttgtatatgtctgcagGTTGTGGATAATCTAAATCTTACTGGTTTAGACCGCGCTTACGTATGTTCAGCTATATCCCCAACAAAGGTTTTCCTTACTCATTGCGCATTGAAGCTTA
                           ttataac  putative branch site (score: 2)
                           ttataacagaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaagtgtttgattcttatgacctacttttgcagctaattccataaccagtttcaattttattctgattctatatggatttggcttataacagaatttgtatatgtctgcagGTTGTGGATAATCTAAATCTTACTGGTTTAGACCGCGCTTACGTATGTTCAGCTATATCCCCAACAAAGGTTTTCCTTACTCATTGCGCATTGAAGCTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC