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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATATTGAACACAATTAAGTAGGTGAGGAACCTCTATTTCTTCCGTCTTCTGCTGATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGGgtaaagatcccatctttttccaaaaatcgataagggaattagtatattcgttcattcatcatcgttctgatgatttcgatttgaatctgtatctagtactctgtattatcagaaattttgattagtagctttgatgtgttcttgttttgcag

Basic information

species Arabidopsis thaliana
transcript AT5G53560.1
intron # 1
splice site 5'
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|164032346|gb|ES158429.1|ES158429
EST:     GCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGG                         TTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTG
genomic: GCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGGgtaaagatcc ... tgttttgcagTTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTG
EST: gi|124751650|gb|EH841780.1|EH841780
EST:     TCTGCTGATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGG                         TTTGAGTGAAGATGT
genomic: TCTGCTGATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGGgtaaagatcc ... tgttttgcagTTTGAGTGAAGATGT
EST: gi|116447035|gb|EG489627.1|EG489627
EST:     GATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGG                         TTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT
genomic: GATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGGgtaaagatcc ... tgttttgcagTTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT
EST: gi|125323553|gb|EL337635.1|EL337635
EST:     CTGCTGATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGG                         TTTGAGTGAAGATGT
genomic: CTGCTGATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGGgtaaagatcc ... tgttttgcagTTTGAGTGAAGATGT
EST: gi|164222877|gb|ES047714.1|ES047714
EST:     GGAGCTATCGAAAATTCTGAATCTGAAAGG                         TTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAG
genomic: GGAGCTATCGAAAATTCTGAATCTGAAAGGgtaaagatcc ... tgttttgcagTTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAG
EST: gi|116479707|gb|EG522299.1|EG522299
EST:     GAAAATTCTGAATCTGAAAGG                         TTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT
genomic: GAAAATTCTGAATCTGAAAGGgtaaagatcc ... tgttttgcagTTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT
EST: gi|116428585|gb|EG471177.1|EG471177
EST:     GCTGATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGG                         TTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT
genomic: GCTGATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGGgtaaagatcc ... tgttttgcagTTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT
EST: gi|116482242|gb|EG524834.1|EG524834
EST:     GCTGATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGG                         TTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT
genomic: GCTGATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGGgtaaagatcc ... tgttttgcagTTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT
EST: gi|116479506|gb|EG522098.1|EG522098
EST:     GGAGCTATCGAAAATTCTGAATCTGAAAGG                         TTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT
genomic: GGAGCTATCGAAAATTCTGAATCTGAAAGGgtaaagatcc ... tgttttgcagTTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT
EST: gi|124937905|gb|EL014588.1|EL014588
EST:     GCTGATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGG                         TTTGAGTGAAGATGT
genomic: GCTGATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGGgtaaagatcc ... tgttttgcagTTTGAGTGAAGATGT
EST: gi|116425880|gb|EG468472.1|EG468472
EST:     GGAGCTATCGAAAATTCTGAATCTGAAAGG                         TTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT
genomic: GGAGCTATCGAAAATTCTGAATCTGAAAGGgtaaagatcc ... tgttttgcagTTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT
EST: gi|164189886|gb|ES045783.1|ES045783
EST:     GCTGATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGG                         TTTGAGTGAAGATGTC
genomic: GCTGATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGGgtaaagatcc ... tgttttgcagTTTGAGTGAAGATGTC
EST: gi|124748779|gb|EH838909.1|EH838909
EST:     GGAGCTATCGAAAATTCTGAATCTGAAAGG                         TTTGAGTGAAGATGTCTTCAAGATCGGAAGGTTCTAAGTTTTGAAGAAGTT
genomic: GGAGCTATCGAAAATTCTGAATCTGAAAGGgtaaagatcc ... tgttttgcagTTTGAGTGAAGATGTCTTCA-GATCGGAAGGTTCTAAGTTTTGAAGAAGTT
EST: gi|116447041|gb|EG489633.1|EG489633
EST:     GATTTCTGAGCTTCGGAGCTATCGAAAATTCTGTATCTGAAAGG                         TTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT
genomic: GATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGGgtaaagatcc ... tgttttgcagTTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT
EST: gi|116485441|gb|EG528033.1|EG528033
EST:     GATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGG                         TTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT
genomic: GATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGGgtaaagatcc ... tgttttgcagTTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT
EST: gi|86079009|gb|DR374766.1|DR374766
EST:     TCTGCTGATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGG                         TTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT
genomic: TCTGCTGATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGGgtaaagatcc ... tgttttgcagTTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT
EST: gi|124905319|gb|EH979399.1|EH979399
EST:     GGAGCTATCGAAAATTCTGAATCTGAAAGG                         TTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT
genomic: GGAGCTATCGAAAATTCTGAATCTGAAAGGgtaaagatcc ... tgttttgcagTTTGAGTGAAGATGTCTTCAGATCGGAAGGTTCTAAGTTTTGAAGAAGTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATATTGAACACAATTAAGTAGGTGAGGAACCTCTATTTCTTCCGTCTTCTGCTGATTTCTGAGCTTCGGAGCTATCGAAAATTCTGAATCTGAAAGGgtaaagatcccatctttttccaaaaatcgataagggaattagtatattcgttcattcatcatcgttctgatgatttcgatttgaatctgtatctagtactctgtattatcagaaattttgattagtagctttgatgtgttcttgttttgcag

- - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT