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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactattggcatcttcgttgcttttgttatttatatggagtcatatttaatgttttatgtttgacggagttctgagagtcaaatgctacatggatcttttttcagAGGGATGTACCAGCGCGGTATCTACTTCGTTTGGGTCAAGGTGAACAAGAGCTTGCCACTGATCTTGACTTTAGCAGACAAGGCCGTGTCAATGCCATGC

Basic information

species Arabidopsis thaliana
transcript AT2G38770.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G38770.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: LOC_Os03g26960.1 (Oryza sativa), 3'ss of exon 12
--gtactattggcatcttcgttgcttttgttatttatatggagtcatatttaatgttttatgtttgacggagttctgagagt--caaatgctacatggatcttttttcagAGGGATGTACCAGCGCGGTATCTACTTCGTTTGGGTCAAGGTGAACAAGAGCTTGCCACTGATCTTGACTTTAGCAGACAAGGCCGTGTCAATGCCATGC
   |  |||||  || |         |  | |  || |||   || ||  || |    | || |  | |   || | | | |  |  ||  ||| ||    || || ||||| ||||| || ||  |||| || |||||| | ||||| |||||||||||| | || |||||||| || |||||| | ||||| ||||||||||| ||||
atctcatattgaaatat-----atcctaatcacctagatgctctc-tacatagttggct-tgctacatgttctttttaaacttgctgattttacttg---tttcttccagAGAGATGTGCCTGCTAGGTACCTTCTTCGTCTTGGTCAGGGTGAACAAGAGTTGGCAACTGATCTCGATTTTAGCCGTCAAGGTCGTGTCAATGCTATGC

upper sequence: AT2G38770.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA0048S00340.1 (Glycine max), 3'ss of exon 11
gtactattggcatcttcgttgcttttgttatttatatggagtcatatttaatgttttatgtttgacggagttctgagagtcaaatgctacatggatcttttttcagAGGGATGTACCAGCGCGGTATCTACTTCGTTTGGGTCAAGGTGAACAAGAGCTTGCCACTGATCTTGACTTTAGCAGACAAGGCCGTGTCAATGCCATGC
    |   ||      |  ||  |||  ||   || ||  |  | |||   || ||| | |      |  |       ||   ||  || ||   | || ||| |||| ||||| || || || ||||| |||||  | |||||||| ||||||||||| || ||||||||||| |||||| | ||||| ||||| ||||| ||||
----tgagggttctaactctgagtttagtaacaatttgttgataaattct-tgctttctatacagaagcttatcatttgtttcatttta-atcctttttgttttagAGAGATGTTCCTGCACGTTATCTTCTTCGACTTGGTCAAGGAGAACAAGAGCTAGCAACTGATCTTGATTTTAGCCGGCAAGGTCGTGTTAATGCAATGC

upper sequence: AT2G38770.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA20G00260.1 (Glycine max), 3'ss of exon 11
gtactattggcatcttcgttgcttttgttatttatatggagtcatatttaatgttttatgtttgacggagttctgagagtcaaatgctacatggatcttttttcagAGGGATGTACCAGCGCGGTATCTACTTCGTTTGGGTCAAGGTGAACAAGAGCTTGCCACTGATCTTGACTTTAGCAGACAAGGCCGTGTCAATGCCATGC
    |   ||  |||    ||   ||  ||   || |   |  | |||   || ||| |        |  |       ||   ||  || ||   | || ||| |||| ||||| || || || ||||| |||||  | |||||||| ||||||||||| || ||||||||||| |||||| | ||||| ||||| ||||| ||||
----ttgaggattctaatctgagcttagtaacaatttattgataaattct-tgctttctacactgaagtttatcatttgtttcatttta-atcctttttgttttagAGAGATGTTCCTGCACGTTATCTTCTTCGACTTGGTCAAGGAGAACAAGAGCTAGCAACTGATCTTGATTTTAGCCGGCAAGGTCGTGTTAATGCAATGC

upper sequence: AT2G38770.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv08s0056g01110.t01 (Vitis vinifera), 3'ss of exon 11
---------------------------------gtactattggcatcttcgttgcttttgttatttatatggagtcatatttaatgttttat--gtttga-cggagttctgagagtcaaatgctacatggatcttttttcagAGGGATGTACCAGCGCGGTATCTACTTCGTTTGGGTCAAGGTGAACAAGAGCTTGCCACTGATCTTGACTTTAGCAGACAAGGCCGTGTCAATGCCATGC
                                  || | ||   ||  |  ||  ||||   ||| |   | ||  |  ||||||| ||     ||| ||    |||||  | ||    ||  || |||  |  | | |||||||||||| || || || ||||| |||||  |||||||||| |||||||| ||||| |||||||||||||||||| | ||||| || || ||||| ||||
gtatgaggcattaagtttaattacttgaagatgatattgttattattatttttatttttacaattga--agaagaaacttttaatgcttctccagttagaatcaagttcctaaagc---at-ttatatgtttactatgtcagAGGGATGTGCCTGCTCGCTATCTTCTTCGACTGGGTCAAGGAGAACAAGAACTTGCGACTGATCTTGACTTTAGCCGTCAAGGACGCGTTAATGCTATGC

upper sequence: AT2G38770.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv13s0019g00880.t01 (Vitis vinifera), 3'ss of exon 11
-----------------gtactattggcatctt-cgttgcttttgttatttat--atggagtcatatttaatgtttt---atgtttgacggagttctgagagtcaaatgctacatggatcttttttcagAGGGATGTACCAGCGCGGTATCTACTTCGTTTGGGTCAAGGTGAACAAGAGCTTGCCACTGATCTTGACTTTAGCAGACAAGGCCGTGTCAATGCCATGC
                   | || | | || |    ||| |||| ||    ||  | | ||  |  ||||||| |     |  |   |   |||||    ||    ||  || |||  |  | | |||||||||||| || || || ||||| |||||  |||| ||||| |||||||| ||||| |||||||||||||| ||| | ||||| ||||| ||||| ||||
gtatgaggcatgaagtttaattacttgaatatgatattgtttttttttacaattgaagaagaaacttttaatgctcctccagttacaatcaagttcctgaagc---at-ttatatgtttactatgtcagAGGGATGTGCCCGCTCGCTATCTTCTTCGACTGGGCCAAGGAGAACAAGAACTTGCAACTGATCTTGACTTCAGCCGTCAAGGACGTGTTAATGCTATGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttttatgtttgacggagttctgagagtcaaatgctacatggatcttttttcagAGGGATGTACCAGCGCGGTATCTACTTCGTTTGGGTCAAGGTGAACAAGAGCTTGCCACTGATCTTGACTTTAGCAGACAAGGCCGTGTCAATGCCATGC
        gtttgac  putative branch site (score: 4)
                                            tcttttttc  putative PPT
                                           atctttttt  TA-rich tract