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'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtttagaattcggtcaatctcactagcataatactgctgtgaaagcaaatcagctcaaactgtttcttctgacagGGAGGAACATTCACAGTCTCCAACCTGGGGGGACCTTTTGGCATCAAACAGTTCTGTGCCGTCATCAATCCACCTCAAGCAGCCATTCTAGCAATCGGAT

Basic information

species Arabidopsis thaliana
transcript AT3G13930.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G13930.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: PP1S78_56V6.1 (Physcomitrella patens), 3'ss of exon 14
-------------gttggtttagaatt-cggtcaat-ctcactagcataatactgctgtgaa-----agcaaatcagctcaaactgtttc--ttctgacagGGAGGAACATTCACAGTCTCCAACCTGGGGGGACCTTTTGGCATCAAACAGTTCTGTGCCGTCATCAATCCACCTCAAGCAGCCATTCTAGCAATCGGAT
             ||   || |  |||  | |   |  |   |||  | ||  | |  |        |  ||||    |  |||||   |  ||||| ||||| |||||||| ||| |||||||  |||| ||||||||||| || ||||| || |||||  |||||||||| ||||||||||||||||| ||  | ||  
attccgtgtttctgtgatttgaagattatgatttttattttttagtttcatttttccttcgttttttactaaatgttttttaactgcaacaattctg-cagGGTGGAACATTTACAATCTCCAATTTGGGAGGACCTTTTGGGATTAAACAATTTTGTGCTATCATCAATCCTCCTCAAGCAGCCATTCTTGCTGTTGGGA
















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|124997256|gb|EL069525.1|EL069525
EST:     TCTTGGCTCAAAAAGCAAAAGAAAACAGCTTGAAGCCGGAAGATTATGAG                         GGAGGAACATTCACAGTCTCCAACCTGGGGGG
genomic: TCTTGGCTCAAAAAGCAAAAGAAAACAGCTTGAAGCCGGAAGATTATGAGgttggtttag ... cttctgacagGGAGGAACATTCACAGTCTCCAACCTGGGGGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactagcataatactgctgtgaaagcaaatcagctcaaactgtttcttctgacagGGAGGAACATTCACAGTCTCCAACCTGGGGGGACCTTTTGGCATCAAACAGTTCTGTGCCGTCATCAATCCACCTCAAGCAGCCATTCTAGCAATCGGAT
 atctcac  putative branch site (score: 3)
                                       ctgtttcttct  putative PPT
       ataatact  TA-rich tract