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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatggatcaatcactatatttctataaactaatctcatgcataaaaatcgaggatcatatttaattgttctgttattggtttgcagGCAAGTCTTCAAGTGAAACAGCTGATTTTTAGGCTGTTACAACGAGATCCGAAGAAAAGACTAGGTTGTTTTGAAGGAGCAAATGAAGTCAAGCAACATT

Basic information

species Arabidopsis thaliana
transcript AT3G45780.1
intron # 19
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|124724306|gb|EH815708.1|EH815708
EST:     CTTTCACCAATGTTCTTCAAAAAGATCTCAAGTTTCCAGCTAGCATTCCT                         GCAAGTCTTCAAGTGAAACAGCTGATTTTTAGGCTGTTAC
genomic: CTTTCACCAATGTTCTTCAAAAAGATCTCAAGTTTCCAGCTAGCATTCCTgtaatggatc ... tggtttgcagGCAAGTCTTCAAGTGAAACAGCTGATTTTTAGGCTGTTAC
EST: gi|124926397|gb|EL004235.1|EL004235
EST:     CTTTCACCAATGTTCTTCAAAAAGATCTCAAGTTTCCAGCTAGCATTCCT                         GCAAGTCTTCAAGTGAAACAGCTGATTTTTAGGCTGTTACAAC
genomic: CTTTCACCAATGTTCTTCAAAAAGATCTCAAGTTTCCAGCTAGCATTCCTgtaatggatc ... tggtttgcagGCAAGTCTTCAAGTGAAACAGCTGATTTTTAGGCTGTTACAAC
EST: gi|125003876|gb|EL076145.1|EL076145
EST:     GATCTCAAGTTTCCAGCTAGCATTCCTT                         GCAAGTCTTCAAGTGAAACAGCTGATTTTTAGGCTGTTACAACGAGATCC
genomic: GATCTCAAGTTTCCAGCTAGCATTCC-Tgtaatggatc ... tggtttgcagGCAAGTCTTCAAGTGAAACAGCTGATTTTTAGGCTGTTACAACGAGATCC
EST: gi|125283567|gb|EL297652.1|EL297652
EST:     GATCTCAAGTTTCCAGCTAGCATTCCT                         GCAAGTCTTCAAGTGAAACAGCTGATTTTTAGGCTGTTACAACGAGATCCG
genomic: GATCTCAAGTTTCCAGCTAGCATTCCTgtaatggatc ... tggtttgcagGCAAGTCTTCAAGTGAAACAGCTGATTTTTAGGCTGTTACAACGAGATCCG
EST: gi|124851641|gb|EH936078.1|EH936078
EST:     CTTTCACCAATGTTCTTCAAAAAGATCTCAAGTTTCCAGCTAGCATTCCT                         GCAAGTCTTCAAGTGAAAC
genomic: CTTTCACCAATGTTCTTCAAAAAGATCTCAAGTTTCCAGCTAGCATTCCTgtaatggatc ... tggtttgcagGCAAGTCTTCAAGTGAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctcatgcataaaaatcgaggatcatatttaattgttctgttattggtttgcagGCAAGTCTTCAAGTGAAACAGCTGATTTTTAGGCTGTTACAACGAGATCCGAAGAAAAGACTAGGTTGTTTTGAAGGAGCAAATGAAGTCAAGCAACATT
                         atatttaattgttctg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatggatcaatcactatatttctataaactaatctcatgcataaaaatcgaggatcatatttaattgttctgttattggtttgcagGCAAGTCTTCAAGTGAAACAGCTGATTTTTAGGCTGTTACAACGAGATCCGAAGAAAAGACTAGGTTGTTTTGAAGGAGCAAATGAAGTCAAGCAACATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA