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

gtacaatgttaaatctcttgagattggatttttgtttatcaattaagtcgtttcggtagaagacttaaaacattgcattgttcattattgaacagCTATGTGTTCTTGGCAATCTCTGTCCTGAAACTGTTGAAGAAGCAGTGGCAATGGTTCCTTCTCTTAAG

Basic information

species Arabidopsis thaliana
transcript AT5G09920.1
intron # 4
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|125017493|gb|EL089762.1|EL089762
EST:     AATACTAAGCAGACATCAACTCACTGAGTTTGAG                         CTATGTGTTCTTGGCAATCT
genomic: AATACTAAGCAGACATCAACTCACTGAGTTTGAGgtacaatgtt ... tattgaacagCTATGTGTTCTTGGCAATCT
EST: gi|86077577|gb|DR373334.1|DR373334
EST:     AATACTAAGCAGACATCAACTCACTGAGTTTGAG                         CTATGTGTTCTTGGCAATCTCTGTCCCGAAACTGTTGAAGAAGCAGTGGCA
genomic: AATACTAAGCAGACATCAACTCACTGAGTTTGAGgtacaatgtt ... tattgaacagCTATGTGTTCTTGGCAATCTCTGTCCTGAAACTGTTGAAGAAGCAGTGGCA
EST: gi|164181711|gb|ES049029.1|ES049029
EST:     AATACTAAGCAGACATCAACTCACTGAGTTTGAG                         CTATGTGTTCTTGGCAATCTCTGTCCTGAAACTGTTGAAGAAGCAG
genomic: AATACTAAGCAGACATCAACTCACTGAGTTTGAGgtacaatgtt ... tattgaacagCTATGTGTTCTTGGCAATCTCTGTCCTGAAACTGTTGAAGAAGCAG
EST: gi|163979944|gb|ES046053.1|ES046053
EST:     AATACTAAGCAGACATCAACTCACTGAGTTTGAG                         CTATGTGTTCTTGGCAATCTCTGTCCT
genomic: AATACTAAGCAGACATCAACTCACTGAGTTTGAGgtacaatgtt ... tattgaacagCTATGTGTTCTTGGCAATCTCTGTCCT
EST: gi|124836965|gb|EH921404.1|EH921404
EST:     ATCAACTCACTGAGTTTGAG                         CTATGTGTTCTTGGCAATCTCTGTCCTGAAACTGTTGAAGAAGCAGTGGCA
genomic: ATCAACTCACTGAGTTTGAGgtacaatgtt ... tattgaacagCTATGTGTTCTTGGCAATCTCTGTCCTGAAACTGTTGAAGAAGCAGTGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattaagtcgtttcggtagaagacttaaaacattgcattgttcattattgaacagCTATGTGTTCTTGGCAATCTCTGTCCTGAAACTGTTGAAGAAGCAGTGGCAATGGTTCCTTCTCTTAAG
                        ttaaaacatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacaatgttaaatctcttgagattggatttttgtttatcaattaagtcgtttcggtagaagacttaaaacattgcattgttcattattgaacagCTATGTGTTCTTGGCAATCTCTGTCCTGAAACTGTTGAAGAAGCAGTGGCAATGGTTCCTTCTCTTAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC