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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtgtttcgttactagacttctaatcatattatttgtctacacgtgaatttcttatcatttgtaattttggtttgtgtcaaccagAATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAGTTCGAGCATCATGAAATGTTCCCAGCTCGAACTAACACAG

Basic information

species Arabidopsis thaliana
transcript AT3G53580.1
intron # 5
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|164005436|gb|ES090540.1|ES090540
EST:     TTAGTATGGGCAATCCTCACTGTATCACATTTGGTAAAAAGGGTGGACCG                         AATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAG
genomic: TTAGTATGGGCAATCCTCACTGTATCACATTTGGTAAAAAGGGTGGACCGgtgcgtgttt ... tgtcaaccagAATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAG
EST: gi|125294517|gb|EL308602.1|EL308602
EST:     TTAGTATGGGCAATCCTCACTGTATCACATTTGGTAAAAAGGGTGGACCG                         AATCTGAAAGTTGATGATTTGAACTTACCAGA
genomic: TTAGTATGGGCAATCCTCACTGTATCACATTTGGTAAAAAGGGTGGACCGgtgcgtgttt ... tgtcaaccagAATCTGAAAGTTGATGATTTGAACTTACCAGA
EST: gi|164220713|gb|EL970282.1|EL970282
EST:     TTTGGT-AAAAGGGTGGACCG                         AATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAGTTCGAG
genomic: TTTGGTAAAAAGGGTGGACCGgtgcgtgttt ... tgtcaaccagAATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAGTTCGAG
EST: gi|164211459|gb|ES159907.1|ES159907
EST:     TTAGTATGGGCAATCCTCACTGTATCACATTTGGTAAAA-GGGTGGGCCG                         AATCTGAAAGTTGATGATT
genomic: TTAGTATGGGCAATCCTCACTGTATCACATTTGGTAAAAAGGGTGGACCGgtgcgtgttt ... tgtcaaccagAATCTGAAAGTTGATGATT
EST: gi|125108273|gb|EL161271.1|EL161271
EST:     TGGGCAATCCTCACTGTATCACATTTGGTAAAAAGGGTGGACCG                         AATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAGTTCGAG
genomic: TGGGCAATCCTCACTGTATCACATTTGGTAAAAAGGGTGGACCGgtgcgtgttt ... tgtcaaccagAATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAGTTCGAG
EST: gi|86082085|gb|DR377844.1|DR377844
EST:     TTAGTATGGGCAATCCTCACTGTATCACATTTGGTAAAAAGGGTGGACCG                         AATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAGTTCGAG
genomic: TTAGTATGGGCAATCCTCACTGTATCACATTTGGTAAAAAGGGTGGACCGgtgcgtgttt ... tgtcaaccagAATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAGTTCGAG
EST: gi|86080834|gb|DR376591.1|DR376591
EST:     TTAGTATGGGCAATCCTCACTGTATCACATTTGGTAAAAAGGGTGGACCG                         AATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAGTTCGAG
genomic: TTAGTATGGGCAATCCTCACTGTATCACATTTGGTAAAAAGGGTGGACCGgtgcgtgttt ... tgtcaaccagAATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAGTTCGAG
EST: gi|86033409|gb|DR329162.1|DR329162
EST:     TTAGTATGGGCAATCCTCACTGTATCACATTTGGTAAAAAGGGTGGACCG                         AATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAGTTCGAG
genomic: TTAGTATGGGCAATCCTCACTGTATCACATTTGGTAAAAAGGGTGGACCGgtgcgtgttt ... tgtcaaccagAATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAGTTCGAG
EST: gi|86078439|gb|DR374196.1|DR374196
EST:     TTAGTATGGGCAATCCTCACTGTATCACATTTGGTAAAAAGGGTGGACCG                         AATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAGTTCGAG
genomic: TTAGTATGGGCAATCCTCACTGTATCACATTTGGTAAAAAGGGTGGACCGgtgcgtgttt ... tgtcaaccagAATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAGTTCGAG
EST: gi|116478499|gb|EG521091.1|EG521091
EST:     TTAGTATGGGCAATCCTCACTGTATCACATTTGGTAAAAAGGGTGGACCG                         AATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAGTTCGAG
genomic: TTAGTATGGGCAATCCTCACTGTATCACATTTGGTAAAAAGGGTGGACCGgtgcgtgttt ... tgtcaaccagAATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAGTTCGAG
EST: gi|116478497|gb|EG521089.1|EG521089
EST:     TTAGTATGGGCAATCCTCACTGTATCACATTTGGTAAAAAGGGTGGACCG                         AATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAGTTCGAG
genomic: TTAGTATGGGCAATCCTCACTGTATCACATTTGGTAAAAAGGGTGGACCGgtgcgtgttt ... tgtcaaccagAATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAGTTCGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatttgtctacacgtgaatttcttatcatttgtaattttggtttgtgtcaaccagAATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAGTTCGAGCATCATGAAATGTTCCCAGCTCGAACTAACACAG
                aatttcttatcatttg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgtgtttcgttactagacttctaatcatattatttgtctacacgtgaatttcttatcatttgtaattttggtttgtgtcaaccagAATCTGAAAGTTGATGATTTGAACTTACCAGAGATTGGTCCAAAGTTCGAGCATCATGAAATGTTCCCAGCTCGAACTAACACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC