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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctccttcgtttcttctacattggtgtttaattctcagcagatgttgtgatcgaccattcaagcacttctctaactcattactctctatctttttttcagAAGAAACAGGTTGATATAGAAAAAATGAAAACTCATATACAGCTTTGATCCTCTTGCGATCCTTGCGGTTCTTGTGATCCTCCCTATATAGAGGAGCCTC

Basic information

species Arabidopsis thaliana
transcript AT5G61930.2
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|116396357|gb|EG438949.1|EG438949
EST:     ATGATTTAGTATGGACACAGTGAAATACTCCCCTGTAATCTTAGGTTCAG                         AAGAAACAGGTTGATATAGAAAAAATGAAAACTCATATACAGCTTTGATCC
genomic: ATGATTTAGTATGGACACAGTGAAATACTCCCCTGTAATCTTAGGTTCAGgttcatctca ... tttttttcagAAGAAACAGGTTGATATAGAAAAAATGAAAACTCATATACAGCTTTGATCC
EST: gi|116396286|gb|EG438878.1|EG438878
EST:     ATGATTTAGTATGGACACAGTGAAATACTCCCCTGTAATCTTAGGTTCAG                         AAGAAACAGGTTGATATAGAAAAAATGAAAACTCATATACAGCTTTGATCC
genomic: ATGATTTAGTATGGACACAGTGAAATACTCCCCTGTAATCTTAGGTTCAGgttcatctca ... tttttttcagAAGAAACAGGTTGATATAGAAAAAATGAAAACTCATATACAGCTTTGATCC
EST: gi|116396280|gb|EG438872.1|EG438872
EST:     ATGATTTAGTATGGACACAGTGAAATACTCCCCTGTAATCTTAGGTTCAG                         AAGAAACAGGTTGATATAGAAAAAATGAAAACTCATATACAGCTTTGATCC
genomic: ATGATTTAGTATGGACACAGTGAAATACTCCCCTGTAATCTTAGGTTCAGgttcatctca ... tttttttcagAAGAAACAGGTTGATATAGAAAAAATGAAAACTCATATACAGCTTTGATCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgatcgaccattcaagcacttctctaactcattactctctatctttttttcagAAGAAACAGGTTGATATAGAAAAAATGAAAACTCATATACAGCTTTGATCCTCTTGCGATCCTTGCGGTTCTTGTGATCCTCCCTATATAGAGGAGCCTC
                       ctctaac  putative branch site (score: 2)
                             ctcattactctctatc  CT-rich tract
                                         tatcttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tctccttcgtttcttctacattggtgtttaattctcagcagatgttgtgatcgaccattcaagcacttctctaactcattactctctatctttttttcagAAGAAACAGGTTGATATAGAAAAAATGAAAACTCATATACAGCTTTGATCCTCTTGCGATCCTTGCGGTTCTTGTGATCCTCCCTATATAGAGGAGCCTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - cttctac
- - - - - - - - - - - - - - - -ttctcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - -cattcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aactcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - actctct