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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcatttatatgaccagacaagacaagttgattcatatacgtctacagtttatgaaacgttgactttcttttggcaggaagAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGTAAGAAAGCAAAAGCATTGGAATCTTCATATTTCAAGTCTGCTTGATCGCCAAA

Basic information

species Arabidopsis thaliana
transcript AT1G27110.2
intron # 14
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|116428732|gb|EG471324.1|EG471324
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         G
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... tggcaggaag-
EST: gi|116428732|gb|EG471324.1|EG471324
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         G
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... tggcaggaag-
EST: gi|116428723|gb|EG471315.1|EG471315
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         AGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGTAAGA
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... tggcaggaagAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGTAAGA
EST: gi|116428725|gb|EG471317.1|EG471317
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         G
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... tggcaggaag-
EST: gi|116428725|gb|EG471317.1|EG471317
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         G
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... tggcaggaag-
EST: gi|116378187|gb|EG420779.1|EG420779
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         G
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... tggcaggaag-
EST: gi|116378187|gb|EG420779.1|EG420779
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         G
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... tggcaggaag-
EST: gi|116428742|gb|EG471334.1|EG471334
EST:     AGAAGGTGACCAAACAGAGAGAGGGTGCTCCTTTCTTGTGGCGTTTGCTG                         G
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... tggcaggaag-
EST: gi|116428742|gb|EG471334.1|EG471334
EST:     AGAAGGTGACCAAACAGAGAGAGGGTGCTCCTTTCTTGTGGCGTTTGCTG                         G
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... tggcaggaag-
EST: gi|116428727|gb|EG471319.1|EG471319
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         G
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... tggcaggaag-
EST: gi|116428727|gb|EG471319.1|EG471319
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         G
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... tggcaggaag-
EST: gi|116428740|gb|EG471332.1|EG471332
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         AGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGTAAGA
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... tggcaggaagAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGTAAGA
EST: gi|116428730|gb|EG471322.1|EG471322
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         G
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... tggcaggaag-
EST: gi|116428730|gb|EG471322.1|EG471322
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         G
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... tggcaggaag-
EST: gi|116378182|gb|EG420774.1|EG420774
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         G
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... tggcaggaag-
EST: gi|116378182|gb|EG420774.1|EG420774
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         G
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... tggcaggaag-
EST: gi|116428747|gb|EG471339.1|EG471339
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         G
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... tggcaggaag-
EST: gi|116428747|gb|EG471339.1|EG471339
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         G
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... tggcaggaag-


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgattcatatacgtctacagtttatgaaacgttgactttcttttggcaggaagAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGTAAGAAAGCAAAAGCATTGGAATCTTCATATTTCAAGTCTGCTTGATCGCCAAA
                               cgttgac  putative branch site (score: 4)
                                     ctttctttt  CT-rich tract
                      tttatgaaa  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtcatttatatgaccagacaagacaagttgattcatatacgtctacagtttatgaaacgttgactttcttttggcaggaagAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGTAAGAAAGCAAAAGCATTGGAATCTTCATATTTCAAGTCTGCTTGATCGCCAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA