Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcatttatatgaccagacaagacaagttgattcatatacgtctacagtttatgaaacgttgactttcttttggcagGAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGTAAGAAAGCAAAAGCATTGGAATCTTCATATTTCAAGTCTGCTTGATCGC

Basic information

species Arabidopsis thaliana
transcript AT1G27110.1
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|116428740|gb|EG471332.1|EG471332
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         -A-GAG--TTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGT
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... cttttggcagGAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGT
EST: gi|116378187|gb|EG420779.1|EG420779
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         GAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGT
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... cttttggcagGAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGT
EST: gi|116428742|gb|EG471334.1|EG471334
EST:     AGAAGGTGACCAAACAGAGAGAGGGTGCTCCTTTCTTGTGGCGTTTGCTG                         GAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTAAAAGTGCAGGT
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... cttttggcagGAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGT
EST: gi|116428723|gb|EG471315.1|EG471315
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         -A-GAG--TTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGT
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... cttttggcagGAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGT
EST: gi|116428730|gb|EG471322.1|EG471322
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         GAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGT
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... cttttggcagGAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGT
EST: gi|116428747|gb|EG471339.1|EG471339
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         GAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGT
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... cttttggcagGAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGT
EST: gi|116378182|gb|EG420774.1|EG420774
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         GAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGT
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... cttttggcagGAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGT
EST: gi|116428732|gb|EG471324.1|EG471324
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         GAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGT
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... cttttggcagGAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGT
EST: gi|116428727|gb|EG471319.1|EG471319
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         GAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGT
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... cttttggcagGAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGT
EST: gi|116428725|gb|EG471317.1|EG471317
EST:     AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTG                         GAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGT
genomic: AGAAGGTGACCAAACAGAGAGATGGTGCTCCTTTCTTGTGGCGTTTGCTGgtaagtcatt ... cttttggcagGAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaagttgattcatatacgtctacagtttatgaaacgttgactttcttttggcagGAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGTAAGAAAGCAAAAGCATTGGAATCTTCATATTTCAAGTCTGCTTGATCGC
                                   cgttgac  putative branch site (score: 4)
                                         ctttctttt  CT-rich tract
        attcatata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtcatttatatgaccagacaagacaagttgattcatatacgtctacagtttatgaaacgttgactttcttttggcagGAAGAGAGTTACTCAATGGAAGGCAAGGAAAAAGCTGGTATAAGTGCAGGTAAGAAAGCAAAAGCATTGGAATCTTCATATTTCAAGTCTGCTTGATCGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA