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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtactaccgctttctcatttgtgacattttttccaaatggagagttttgtctcttgacttatcatctggctaatattattactctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCTG

Basic information

species Arabidopsis thaliana
transcript AT1G27110.1
intron # 10
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|116428740|gb|EG471332.1|EG471332
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
EST: gi|116428736|gb|EG471328.1|EG471328
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
EST: gi|116428741|gb|EG471333.1|EG471333
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
EST: gi|116428746|gb|EG471338.1|EG471338
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
EST: gi|116378187|gb|EG420779.1|EG420779
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
EST: gi|116428724|gb|EG471316.1|EG471316
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
EST: gi|116428723|gb|EG471315.1|EG471315
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
EST: gi|116428730|gb|EG471322.1|EG471322
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
EST: gi|116428747|gb|EG471339.1|EG471339
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
EST: gi|116378182|gb|EG420774.1|EG420774
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTTT
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
EST: gi|116428726|gb|EG471318.1|EG471318
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
EST: gi|116428732|gb|EG471324.1|EG471324
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
EST: gi|116428743|gb|EG471335.1|EG471335
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAG
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAG
EST: gi|116428737|gb|EG471329.1|EG471329
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
EST: gi|116428727|gb|EG471319.1|EG471319
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
EST: gi|116428729|gb|EG471321.1|EG471321
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
EST: gi|116428721|gb|EG471313.1|EG471313
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
EST: gi|116428745|gb|EG471337.1|EG471337
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
EST: gi|116428731|gb|EG471323.1|EG471323
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
EST: gi|116428725|gb|EG471317.1|EG471317
EST:     GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCG                         AACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT
genomic: GTTGAAAAAACTTCACTAGCACATGAATTGCTCGAGGGCCTCAAGTCCCGgtcagtacta ... actctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatggagagttttgtctcttgacttatcatctggctaatattattactctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCTG
                                ggctaat  putative branch site (score: 3)
                                           ttactct  putative PPT
                                   taatattattactcta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagtactaccgctttctcatttgtgacattttttccaaatggagagttttgtctcttgacttatcatctggctaatattattactctaacagAACATCCGCTATGAACCCGAAGAAACAAAAGCTGATGCAGAAAGCGATTCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT