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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttagtattctttgtgaattattctcactattgaactgattatagatggttcctttattctgtgtgttaatacttgtgttgactttttgtgatgtgtagGGAAGATTTCCGTGAGACTTTCAAGAAGGAAAACCCCAAGAACAAGTCTGTAGCTACT

Basic information

species Arabidopsis thaliana
transcript AT1G20693.2
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|163977800|gb|ES043825.1|ES043825
EST:     AGGACCCCTAACAAACCAAAGAGGCCAGCCGGTGCTTTCTTCGTTTTCAT                         GGAAGATTTCCGTGAGACTTTCAAGAAGGAAAACCC
genomic: AGGACCCC-AACAAACCAAAGAGGCCAGCCAGTGCTTTCTTCGTTTTCATgtaatcctcg ... tgatgtgtagGGAAGATTTCCGTGAGACTTTCAAGAAGGAAAACCC
EST: gi|164068876|gb|ES124453.1|ES124453
EST:     AAGGACCCCAACAAACCAAAGAGGCCAGCCAGTGCTTTCTTCGTTTTCAT                         GGAAGATTTCCGTGAGACTTTCAAGAAGGAAAACCCCAAGAACAAGTC
genomic: AAGGACCCCAACAAACCAAAGAGGCCAGCCAGTGCTTTCTTCGTTTTCATgtaatcctcg ... tgatgtgtagGGAAGATTTCCGTGAGACTTTCAAGAAGGAAAACCCCAAGAACAAGTC
EST: gi|164158781|gb|ES187958.1|ES187958
EST:     CTTCGTTTTCAT                         GGAAGATTTCCGTGAGACTTTCAAGAAGGAAAACCCCAAGAACAAGTCTGT
genomic: CTTCGTTTTCATgtaatcctcg ... tgatgtgtagGGAAGATTTCCGTGAGACTTTCAAGAAGGAAAACCCCAAGAACAAGTCTGT
EST: gi|164067173|gb|ES061782.1|ES061782
EST:     AAGGACCCCAACAAACCAAAGAGGCCAGCCAGTGCTTTCTTCGTTTTCAT                         GGAAGATTTCCGTGAGACTTTCAAGAAGGAAAACCCCAAGAACAAGTCTGT
genomic: AAGGACCCCAACAAACCAAAGAGGCCAGCCAGTGCTTTCTTCGTTTTCATgtaatcctcg ... tgatgtgtagGGAAGATTTCCGTGAGACTTTCAAGAAGGAAAACCCCAAGAACAAGTCTGT
EST: gi|116400368|gb|EG442960.1|EG442960
EST:     AAGGACCCCAACAAACCAAAGAGGCCAGCCAGTGCTTTCTTCGTTTTCAT                         GGAAGATTTCCGTGAGACTTTCAAGAAGGAAAACCCCAAGAACAAGTCTGT
genomic: AAGGACCCCAACAAACCAAAGAGGCCAGCCAGTGCTTTCTTCGTTTTCATgtaatcctcg ... tgatgtgtagGGAAGATTTCCGTGAGACTTTCAAGAAGGAAAACCCCAAGAACAAGTCTGT
EST: gi|163975361|gb|ES019807.1|ES019807
EST:     CTTTC-TCGTTTTCAT                         GGAAGATTTCCGTGAGACTTTCAAGAAGGAAAACCCCAAGAACAAGTCTGT
genomic: CTTTCTTCGTTTTCATgtaatcctcg ... tgatgtgtagGGAAGATTTCCGTGAGACTTTCAAGAAGGAAAACCCCAAGAACAAGTCTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatggttcctttattctgtgtgttaatacttgtgttgactttttgtgatgtgtagGGAAGATTTCCGTGAGACTTTCAAGAAGGAAAACCCCAAGAACAAGTCTGTAGCTACT
                                tgttgac  putative branch site (score: 3)
                                      ctttttgt  CT-rich tract
                      ttaatactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttttagtattctttgtgaattattctcactattgaactgattatagatggttcctttattctgtgtgttaatacttgtgttgactttttgtgatgtgtagGGAAGATTTCCGTGAGACTTTCAAGAAGGAAAACCCCAAGAACAAGTCTGTAGCTACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC