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'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atggagaaaaaaaaaagctttttggttcatatttcaaatcatgctatagcttcgtttcattttatactttattcacttttgctgataccttctctaacagACTTATCCAAACCCGTTGCAATCAAATGCTGCTTATTCAGTAGTAAG

Basic information

species Arabidopsis thaliana
transcript AT4G32840.1
intron # 1
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|19874592|gb|AU235423.1|AU235423
EST:     ATGTACTCGAAGATGTTCCTCATTTGAGCGATTACATTCTCGATCTCCCC                         ACTTATCCAAACCCGTTGCAATCAAATGCTGCTTATTCAGTAGTAAG
genomic: ATGTACTCGAAGATGTTCCTCATTTGAGCGATTACATTCTCGATCTCCCCgtactacttc ... tctctaacagACTTATCCAAACCCGTTGCAATCAAATGCTGCTTATTCAGTAGTAAG
EST: gi|124760614|gb|EH850744.1|EH850744
EST:     AGCGATTACATTCTCGATCTCCCC                         ACTTATCCAAACCCGTTGCAATCAAATGCTGCTTATTCAGTAGTAAG
genomic: AGCGATTACATTCTCGATCTCCCCgtactacttc ... tctctaacagACTTATCCAAACCCGTTGCAATCAAATGCTGCTTATTCAGTAGTAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atagcttcgtttcattttatactttattcacttttgctgataccttctctaacagACTTATCCAAACCCGTTGCAATCAAATGCTGCTTATTCAGTAGTAAG
                                  tgctgat  putative branch site (score: 3)
                                        taccttctct  CT-rich tract
             attttatactttattc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atggagaaaaaaaaaagctttttggttcatatttcaaatcatgctatagcttcgtttcattttatactttattcacttttgctgataccttctctaacagACTTATCCAAACCCGTTGCAATCAAATGCTGCTTATTCAGTAGTAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- ggagaaa
- - - aaaaaaa
- - - - - - - - - tttttgg
- - - - - - - - - - - - - - - - - caaatca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgatac