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

gtttttctcctttcccttaatatgacaagaaaattttgagttctctctactgttttaacttaaaaagtcacccaatactgctacatctctagGTATGAATATCTAGGAAGTCACACCACAGAGCTTATTGTTGGCTCCACAGACAAGCAACCACTACTCGAGACTCCTGGTGAG

Basic information

species Arabidopsis thaliana
transcript AT4G17050.1
intron # 7
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|86084005|gb|DR379764.1|DR379764
EST:     GACTGTGTTGAGTCTGCAACACTTGTTGTCTTCGAGCGGAG                         GTATGAATATCTAGGAAGTCACACCACAGAGCTTATTGTTGGCTCCACAGA
genomic: GACTGTGTTGAGTCTGCAACACTTGTTGTCTTCGAGCGGAGgtttttctcc ... acatctctagGTATGAATATCTAGGAAGTCACACCACAGAGCTTATTGTTGGCTCCACAGA
EST: gi|164018731|gb|ES169608.1|ES169608
EST:     TGTTGTCTTCGAGCGGAG                         GTATGAATATCTTAGGAAGTCACACCACAGAGCTTATTGTTGGCTCCACAG
genomic: TGTTGTCTTCGAGCGGAGgtttttctcc ... acatctctagGTATGAATATC-TAGGAAGTCACACCACAGAGCTTATTGTTGGCTCCACAG
EST: gi|164007522|gb|EL999989.1|EL999989
EST:     CATTCCTTGGACTGTGTTGAGTCTGCAACACTTGTTGTCTTCGAGCGGAG                         GTATGAATATCTAGGAAGTC
genomic: CATTCCTTGGACTGTGTTGAGTCTGCAACACTTGTTGTCTTCGAGCGGAGgtttttctcc ... acatctctagGTATGAATATCTAGGAAGTC
EST: gi|19878038|gb|AU238869.1|AU238869
EST:     CATTCCTTGGACTGTGTTGAGTCTGCAACACTTGTTGTCTTCNAGCGGAG                         GTATGAATATCTAGGAAGTCACACCACA
genomic: CATTCCTTGGACTGTGTTGAGTCTGCAACACTTGTTGTCTTCGAGCGGAGgtttttctcc ... acatctctagGTATGAATATCTAGGAAGTCACACCACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagttctctctactgttttaacttaaaaagtcacccaatactgctacatctctagGTATGAATATCTAGGAAGTCACACCACAGAGCTTATTGTTGGCTCCACAGACAAGCAACCACTACTCGAGACTCCTGGTGAG
               ttttaac  putative branch site (score: 2)
                                              catctct  putative PPT
             tgttttaacttaaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttttctcctttcccttaatatgacaagaaaattttgagttctctctactgttttaacttaaaaagtcacccaatactgctacatctctagGTATGAATATCTAGGAAGTCACACCACAGAGCTTATTGTTGGCTCCACAGACAAGCAACCACTACTCGAGACTCCTGGTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA