Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTATGTATCAAAACACTCAAGGAGCAAATGCTGGAGATAATGATCCTAATAACACAACAgtatgtcgctagttttcgtttgttattctccaaaatctttagtctgttgtttttgatagactgcaagtttaacgcgttctactttcag

Basic information

species Arabidopsis thaliana
transcript AT5G54900.1
intron # 3
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|86054573|gb|DR350330.1|DR350330
EST:     AAAACACTCAAGGAGCAAATGCTGGAGATAATGATCCTAATAACACAACA                         ATTTTTGTTGGTGGTCTGGATGCTAATGTTACAGACGATGAATTAAAGTCA
genomic: AAAACACTCAAGGAGCAAATGCTGGAGATAATGATCCTAATAACACAACAgtatgtcgct ... ctactttcagATTTTTGTTGGAGGTCTGGATGCTAATGTTACAGACGATGAATTAAAGTCA
EST: gi|116479564|gb|EG522156.1|EG522156
EST:     AAAACACTCAAGGAGCAAATGCTGGAGATAATGATCCTAATAACACAACA                         ATTTTTGTTGGAGGTCTGGATGCTAATGTTACAGACGATGAATTAAAGTCA
genomic: AAAACACTCAAGGAGCAAATGCTGGAGATAATGATCCTAATAACACAACAgtatgtcgct ... ctactttcagATTTTTGTTGGAGGTCTGGATGCTAATGTTACAGACGATGAATTAAAGTCA
EST: gi|86083467|gb|DR379226.1|DR379226
EST:     AAAACACTCAAGGAGCAAATGCTGGAGATAATGATCYTAATAACMCAACA                         ATTTTTGTTGGAGGTCTGGATGCTAATGTTACAGACGATGAATTAAAGTCA
genomic: AAAACACTCAAGGAGCAAATGCTGGAGATAATGATCCTAATAACACAACAgtatgtcgct ... ctactttcagATTTTTGTTGGAGGTCTGGATGCTAATGTTACAGACGATGAATTAAAGTCA
EST: gi|116479553|gb|EG522145.1|EG522145
EST:     AAAACACTCAAGGAGCAAATGCTGGAGATAATGATCCTAATAACACAACA                         ATTTTTGTTGGAGGTCTGGATGCTAATGTTACAGACGATGAATTAAAGTCA
genomic: AAAACACTCAAGGAGCAAATGCTGGAGATAATGATCCTAATAACACAACAgtatgtcgct ... ctactttcagATTTTTGTTGGAGGTCTGGATGCTAATGTTACAGACGATGAATTAAAGTCA
EST: gi|125217942|gb|EL232025.1|EL232025
EST:     AAACACTCAAGGAGCAAATGCTGGAGATAATGATCCTAATAACACAACTA                         ATTTTTGTTGGAGGTCTGGA
genomic: AAACACTCAAGGAGCAAATGCTGGAGATAATGATCCTAATAACACAAC-Agtatgtcgct ... ctactttcagATTTTTGTTGGAGGTCTGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTATGTATCAAAACACTCAAGGAGCAAATGCTGGAGATAATGATCCTAATAACACAACAgtatgtcgctagttttcgtttgttattctccaaaatctttagtctgttgtttttgatagactgcaagtttaacgcgttctactttcag

- - - - - - - - - AAGGAG
- - - - - - - - - - GGAGCA
- - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - GGAGAT