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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCCGACTTTGATGCTACAGTGGGTGTTCACCCCACAGCAGCTGAGGAGTTTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAGgtttgtttgtgaacagtcaaaacttatccatctagttatttctcgtggttttgcaacatgggaaaatgattggaactgagtgagatgtgtatgtccaatttcatttcag

Basic information

species Arabidopsis thaliana
transcript AT3G54660.1
intron # 9
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|86061673|gb|DR357430.1|DR357430
EST:     TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCMAAGACTCCTCTGAG                         GGAAAGGCAAGTCCTGAAGCTCAAACAGCTG
genomic: TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAGgtttgtttgt ... ttcatttcagGGAAAGGCAAGTCCTGAAGCTAAAACAGCTG
EST: gi|124793063|gb|EH882742.1|EH882742
EST:     GGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAG                         GGAAAGGCAAGTCCTGAAGCTAAAACAG
genomic: GGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAGgtttgtttgt ... ttcatttcagGGAAAGGCAAGTCCTGAAGCTAAAACAG
EST: gi|116472768|gb|EG515360.1|EG515360
EST:     TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACCCCTCTGAG                         GGAAAGGCAAGTCCTGAAGCTAAAACAGCTGCTGGGGTGTAGAGAAGGTTG
genomic: TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAGgtttgtttgt ... ttcatttcagGGAAAGGCAAGTCCTGAAGCTAAAACAGCTGCTGGGGTGTAGAGAAGGTTG
EST: gi|86061670|gb|DR357427.1|DR357427
EST:     TTGTCACTATGAGGGCTCCAACCAGGAAATKCCGCAAAGACTCCTCTGAG                         GGAAAGGCAAGTCCTGAAGCTAAAACAGSTGCTGGGGTGTAGAGAAGGTTG
genomic: TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAGgtttgtttgt ... ttcatttcagGGAAAGGCAAGTCCTGAAGCTAAAACAGCTGCTGGGGTGTAGAGAAGGTTG
EST: gi|86061672|gb|DR357429.1|DR357429
EST:     TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAG                         GGAAAGGCAAGTCCTGAAGCTAAAACAGCTGCTGGGGTGTAGAGAAGGTTG
genomic: TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAGgtttgtttgt ... ttcatttcagGGAAAGGCAAGTCCTGAAGCTAAAACAGCTGCTGGGGTGTAGAGAAGGTTG
EST: gi|124963430|gb|EL037767.1|EL037767
EST:     TGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAAG                         GGAAAGGCAAGTCCTGAAGCTAAAACAGCT
genomic: TGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGA-Ggtttgtttgt ... ttcatttcagGGAAAGGCAAGTCCTGAAGCTAAAACAGCT
EST: gi|164032530|gb|ES070431.1|ES070431
EST:     TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAG                         GGAAAGGCAAGTCC
genomic: TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAGgtttgtttgt ... ttcatttcagGGAAAGGCAAGTCC
EST: gi|86061674|gb|DR357431.1|DR357431
EST:     TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAG                         GGAAAGGCAAGTCCTGAAGCTAAAACAGCTGCTGGGGTGTAGAGAAGGTTG
genomic: TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAGgtttgtttgt ... ttcatttcagGGAAAGGCAAGTCCTGAAGCTAAAACAGCTGCTGGGGTGTAGAGAAGGTTG
EST: gi|125192261|gb|EL207215.1|EL207215
EST:     TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAG                         GGAAAGGCAAGTCCTGAAGC
genomic: TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAGgtttgtttgt ... ttcatttcagGGAAAGGCAAGTCCTGAAGC
EST: gi|86061671|gb|DR357428.1|DR357428
EST:     TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAG                         GGAAAGGCAAGTCCTGAAGCTAAAACAGCTGCTGGGGTGTAGAGAAGGTTG
genomic: TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAGgtttgtttgt ... ttcatttcagGGAAAGGCAAGTCCTGAAGCTAAAACAGCTGCTGGGGTGTAGAGAAGGTTG
EST: gi|124857790|gb|EH942227.1|EH942227
EST:     TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAG                         GGAAAGGCAAGT
genomic: TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAGgtttgtttgt ... ttcatttcagGGAAAGGCAAGT
EST: gi|86078733|gb|DR374490.1|DR374490
EST:     TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAG                         GGAAAGGCAAGTCCTGAAGCTAAAACAGCTGCTGGGGTGTAGAGAAGGTTG
genomic: TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAGgtttgtttgt ... ttcatttcagGGAAAGGCAAGTCCTGAAGCTAAAACAGCTGCTGGGGTGTAGAGAAGGTTG
EST: gi|86086942|gb|DR382701.1|DR382701
EST:     TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTYTGAG                         GGAAAGGCAAGTCCTGAAGCTAAAACAGCTGCTGGGGTGTARAGAAGGTTG
genomic: TTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAGgtttgtttgt ... ttcatttcagGGAAAGGCAAGTCCTGAAGCTAAAACAGCTGCTGGGGTGTAGAGAAGGTTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCCGACTTTGATGCTACAGTGGGTGTTCACCCCACAGCAGCTGAGGAGTTTGTCACTATGAGGGCTCCAACCAGGAAATTCCGCAAAGACTCCTCTGAGgtttgtttgtgaacagtcaaaacttatccatctagttatttctcgtggttttgcaacatgggaaaatgattggaactgagtgagatgtgtatgtccaatttcatttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC