Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtttattaatccttcttcatgttttctgtttgaatgtagcagaacgatatttgatgttcaagagtttttgcaaatcgttcttggttttgacagGTCAATTGTGTTATCATGAGGGGATTGAATGATGATGAGATTTGTGATTTTGTTGAGTTGACACGCGACAAGCCAATCAATGTCCGGTTCATCGAGTTTA

Basic information

species Arabidopsis thaliana
transcript AT2G31955.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G31955.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os12g32230.1 (Oryza sativa), 3'ss of exon 3
--------------------------------------gtatgtttattaatccttcttcatgt---tttctgtttgaatgtagcagaacgatatttgatgttcaagagtttttgcaaatcgttcttggttt----tgacagGTCAATTGTGTTATCATGAGGGGATTGAATGATGATGAGATTTGTGATTTTGTTGAGTTGACACGCGACAAGCCAATCAATGTCCGGTTCATCGAGTTTA
                                      |  |  ||   ||   | ||  | ||     | | |    ||      || || |  |   |  |  |   |  |||    || |||    |||    || |||||||| |||||| ||||| | ||| |||||||||||||||| ||||||||||||||  ||||  | ||||||||  |||||||| | || || |||||||
gtatgcacattttcgtatatgtaaaatttctgcagtttgccttctttccaacattcctcaaagtggagctatatccacatcataatgagcgtttatcattagtttaatttaattggttctctttccctttttctgctgccagGTCAACTGTGTTGTCATGCGTGGAATGAATGATGATGAGATCTGTGATTTTGTTGAAATGACGAGAGACAAGCCTGTCAATGTCAGATTTATTGAGTTTA

upper sequence: AT2G31955.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os02g15870.1 (Oryza sativa), 3'ss of exon 3
--------------gtatgtttattaatccttcttcatgttttctgtttga------atgtagcagaacgatatttg----atgttcaagagtttt------tgcaaatcgttcttggttt----------tgacagGTCAATTGTGTTATCATGAGGGGATTGAATGATGATGAGATTTGTGATTTTGTTGAGTTGACACGCGACAAGCCAATCAATGTCCGGTTCATCGAGTTTA
              | ||   |   | | || |    ||| |||| ||| |      |   |   || | ||||  |    || || |  | || |      |  || | ||||||  |            || |||||||| || ||| ||||| | ||| |||||||||| ||||| ||||||||||||||  ||||  | ||||||||  |||||||| | || || |||||||
gtatgcagatttttgcatacctgaaatttctgcagtttgtcttctttttaacataccacaaactggagctatatccgcatcatattgagcatttatcctcagtttaattggttctttttccctttttctgctgccagGTCAACTGCGTTGTCATGCGTGGAATGAATGATGACGAGATCTGTGATTTTGTTGAAATGACGAGAGACAAGCCTGTCAATGTCAGATTTATAGAGTTTA

upper sequence: AT2G31955.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA15G42290.1 (Glycine max), 3'ss of exon 2
-gtatgtttattaatccttcttcatgttttctgtttgaa-tgtagcagaacgatatttgatg---ttcaagagtttttgcaaatcgttcttggttttgacagGTCAATTGTGTTATCATGAGGGGATTGAATGATGATGAGATTTGTGATTTTGTTGAGTTGACACGCGACAAGCCAATCAATGTCCGGTTCATCGAGTTTA
    ||||  | |||     | |||    ||| |   || | | | |   |  |  | ||||   || |||   | ||| |  |   | | |  |||  ||||||||||||||| | ||| | ||||| ||||||||||| || ||||| |||||||||||||| || || ||||||||  || | ||||| || ||||| |
gaattgttcttgaataaaggtgcataacctctatggaaaatttcgtatgcctgtgatggatgcattttaaggtatcttgtatgtttctgtggtattt--cagGTCAATTGTGTTGTAATGCGTGGATTCAATGATGATGAAATCTGTGACTTTGTTGAGTTGACGCGTGAAAAGCCAATTGATATTCGGTTTATAGAGTTCA

upper sequence: AT2G31955.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA08G16780.1 (Glycine max), 3'ss of exon 2
-gtatgtttattaatccttcttcatgttttctgtttga-atgtagcagaacgatatttgatg---ttcaagagtttttgcaaatcgttcttggttttgacagGTCAATTGTGTTATCATGAGGGGATTGAATGATGATGAGATTTGTGATTTTGTTGAGTTGACACGCGACAAGCCAATCAATGTCCGGTTCATCGAGTTTA
    ||||  | |||     | |||    ||| |   | || |   |   |  |  | ||||   || |||   | ||| |  |  || |||  |||  ||||||||||||||| | ||| | ||||| ||||||||||| || ||||| |||||||||||||| || || ||||||||  || | ||||| || ||||| |
gaattgttcttgaataaaggtgcataacctctatggaagatttcatatgccactgatggatgcattttaaggtatcttgtatgtttttgttgtattt--cagGTCAATTGTGTTGTAATGCGTGGATTTAATGATGATGAAATCTGTGACTTTGTTGAGTTGACGCGTGAAAAGCCAATTGATATTCGGTTTATAGAGTTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcagaacgatatttgatgttcaagagtttttgcaaatcgttcttggttttgacagGTCAATTGTGTTATCATGAGGGGATTGAATGATGATGAGATTTGTGATTTTGTTGAGTTGACACGCGACAAGCCAATCAATGTCCGGTTCATCGAGTTTA
          atttgat  putative branch site (score: 5)
        atatttgat  TA-rich tract