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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taatgacttgttttcctcgtctgctgtttattcatagtgatgaatttgttatggtaccaatatttacattgcattgaaacttttatctctctgattgcagTGAAGGTGGCTTTTTTAATGCAATTATGTCGTTTCCGGAGAATTATCCAGTTTCACCACCAACTGTGACGTTTACCTCGGAGATGTGGCATCCTAATG

Basic information

species Arabidopsis thaliana
transcript AT3G55380.2
intron # 2
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|124943084|gb|EL019293.1|EL019293
EST:     AGCGTCTCTATTATGGGTCCTCCTGATACTTTGTA                         TGAAGGTGGCTTTTTTAATGCAATTATGTCGTTTCCGGAGAATTACCCAGT
genomic: AGCGTCTCTATTATGGGTCCTCCTGATACTTTGTAgtgcgtttct ... ctgattgcagTGAAGGTGGCTTTTTTAATGCAATTATGTCGTTTCCGGAGAATTATCCAGT
EST: gi|86066037|gb|DR361794.1|DR361794
EST:     AACGTTTTCCAATGGAGCGTCTCTATTATGGGTCCTCCTGATACTTTGTA                         TGAAGGTGGCTTTTTTAATGCAATTATGTCGTTTCCGGAGAATTATCCAGT
genomic: AACGTTTTCCAATGGAGCGTCTCTATTATGGGTCCTCCTGATACTTTGTAgtgcgtttct ... ctgattgcagTGAAGGTGGCTTTTTTAATGCAATTATGTCGTTTCCGGAGAATTATCCAGT
EST: gi|86066034|gb|DR361791.1|DR361791
EST:     AACGTTTTCCAATGGAGCGTCTCTATTATGGGTCCTCCTGATACTTTGTA                         TGAAGGTGGCTTTTTTAATGCAATTATGTCGTTTCCGGAGAATTATCCAGT
genomic: AACGTTTTCCAATGGAGCGTCTCTATTATGGGTCCTCCTGATACTTTGTAgtgcgtttct ... ctgattgcagTGAAGGTGGCTTTTTTAATGCAATTATGTCGTTTCCGGAGAATTATCCAGT
EST: gi|86066036|gb|DR361793.1|DR361793
EST:     AACGTTTTCCAATGGAGCGTCTCTATTATGGGTCCTCCTGATACTTTGTA                         TGAAGGTGGCTTTTTTAATGCAATTATGTCGTTTCCGGAGAATTATCCNGT
genomic: AACGTTTTCCAATGGAGCGTCTCTATTATGGGTCCTCCTGATACTTTGTAgtgcgtttct ... ctgattgcagTGAAGGTGGCTTTTTTAATGCAATTATGTCGTTTCCGGAGAATTATCCAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttatggtaccaatatttacattgcattgaaacttttatctctctgattgcagTGAAGGTGGCTTTTTTAATGCAATTATGTCGTTTCCGGAGAATTATCCAGTTTCACCACCAACTGTGACGTTTACCTCGGAGATGTGGCATCCTAATG
                                           ctctgat  putative branch site (score: 4)
                                  cttttatctctct  CT-rich tract
                           attgaaacttttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taatgacttgttttcctcgtctgctgtttattcatagtgatgaatttgttatggtaccaatatttacattgcattgaaacttttatctctctgattgcagTGAAGGTGGCTTTTTTAATGCAATTATGTCGTTTCCGGAGAATTATCCAGTTTCACCACCAACTGTGACGTTTACCTCGGAGATGTGGCATCCTAATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG