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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgttaacttgagaatgataaaagctatcaataattgacgctatggatataatctgttatacatttcgtaaatatatttcaaagttaattaacataatctgtgaatgtcctgaatgcaaaatttagGATCCTTTTCTAGGTCAGCTGTGAATAATGAAAGTGAAGCTAAGACTGGCCTATCAGGGCTTATAACAGGAATCATCATTGGATGTTCTCTACTGTTCTT

Basic information

species Arabidopsis thaliana
transcript AT5G13550.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G13550.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: LOC_Os09g06499.1 (Oryza sativa), 3'ss of exon 10
---gtacgttaact-tgagaatgataaaagctatcaataattgacgctatggatataatctgttatacatttcgtaaatatatttcaaagttaattaacataatctgtgaatgtcctgaatgcaaaatttagGATCCTTTTCTAGGTCAGCTGTGAATAATGAAAGTGAAGCTAAGACTGGCCTATCAGGGCTTATAACAGGAATCATCATTGGATGTTCTCTACTGTTCTT
     |   ||||  |   ||||| | |   | ||  |  ||     | || |||| |  |  |  | |||   | |||  | |  | || |||    || ||    ||| | |  || |       || ||| |||||||||||||||||||||||| ||||||||| ||| || ||||| ||||| ||  | ||||  || || || |||||  || ||||  ||||  |
gtaaaatactaaccatattaatgagagatcatttctgtgcttatttatctgtatattacataattaaaattc--ttaattcact--agagctaagcttcaaaaagc-tgattattttgtactattctttcagGTTCCTTTTCTAGGTCAGCTGTGAATCATGAAAGTGGAGCAAAAACTGGTCTATCTGGAATCATAATGGGCATAATAATTGGTGGTGCTCTCTTGTTTAT

upper sequence: AT5G13550.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GRMZM2G068212_T01 (Zea mays), 3'ss of exon 9
gtacgttaacttgagaatgataaaagctatcaataattgacgctatggatataatctgttatacatttcgtaaatatatttcaaagttaattaacataatctgtgaatgtcctgaatgcaaaatttagGATCCTTTTCTAGGTCAGCTGTGAATAATGAAAGTGAAGCTAAGACTGGCCTATCAGGGCTTATAACAGGAATCATCATTGGATGTTCTCTACTGTTCTT
|||   ||  || |  || ||| | |  || |||||   |  |  | | ||   ||| ||  | |||   | | |   |   | |   || ||  | || |  | ||  | |||  |     ||  ||| ||||||||||||||||| |||||| |||||||||  || || |||||  |||| ||  | ||||  || || ||||||||  || ||||  | ||  |
gtaaaata--tttaacattatata-gtgataaataacccagtcctttgtta--gtcttttgcatattgtcttagt---tgctagatcaaaatattacaagcc-taaac-tactggttc----atgcagGCTCCTTTTCTAGGTCAGCAGTGAATCATGAAAGTGGGGCAAAAACTGGGTTATCTGGAATCATAATGGGCATAATCATTGGTGGTGCTCTCTTATTTAT

upper sequence: AT5G13550.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA18G52270.1 (Glycine max), 3'ss of exon 9
----------------gtacgttaacttgagaatgat-aaaagctatcaataattgacgctatggatataatctgtta-tacatttcgtaaatatatttcaaagttaattaacata---atctgtgaatgtcctgaatgca-aaatttagGATCCTTTTCTAGGTCAGCTGTGAATAATGAAAGTGAAGCTAAGACTGGCCTATCAGGGCTTATAACAGGAATCATCATTGGATGTTCTCTACTGTTCTT-
                 |  |  || |   || | || |   |   |   | | | | | | ||| |  ||    | | |  |||||   | |||  ||  |  | ||||    |    ||   |  || |      || |   ||  |||||||||||| ||||||||||| ||| |||||||||  || ||  ||||  |||| ||| || |  ||||||| || ||    ||| | ||  ||||  | 
taagtattcaattggactctgaaaaataaggagtcattatttgtagttggttacttaggttttggttccaaagcctcaattaatttcaagattatgattttacttgaatttttttttatattaatagatatttcttttgaatgtatgcaggATCCTTTTCAAGGTCAGCTGTAAATCATGAAAGTGGTGCAAAATCTGGTGTATCTGGGATTGTTTCAGGAATTATAATGACCTGTGCACTTTTGTTTCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatatttcaaagttaattaacataatctgtgaatgtcctgaatgcaaaatttagGATCCTTTTCTAGGTCAGCTGTGAATAATGAAAGTGAAGCTAAGACTGGCCTATCAGGGCTTATAACAGGAATCATCATTGGATGTTCTCTACTGTTCTT
               aattaac  putative branch site (score: 2)
     tttcaaagttaattaa  TA-rich tract