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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaaaccaaattttcttaaactctttagagatacaattcaaagatcttatcaaagttgtaacttttgcagGTATCGTATTCGCTTTTGATCTTTTTCTGCGGGATGTTCATAACCGTTGATGGATTCAACAAAACTGGTATCCCTACCGCTCTATGGGACCTAATGGAGC

Basic information

species Arabidopsis thaliana
transcript AT1G02260.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G02260.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os10g31040.4 (Oryza sativa), 3'ss of exon 2
--------------------gtgaaaaccaaattttcttaa--actctttagagatacaat-tcaaagatcttatcaaa-----gttgtaacttttgcagGTATCGTATTCGCTTTTGATCTTTTTCTGCGGGATGTTCATAACCGTTGATGGATTCAACAAAACTGGTATCCCTACCGCTCTATGGGACCTAATGGAGC
                     |      |  | ||| | ||    | | | ||| |  | | |  |   | ||   ||      ||||     ||||||||| || || |||||  ||||||| ||||||||||||||||| || || |||||||||||||| ||||| || || | | |||| ||||| ||  | ||||
ggaacagggagagtaacagtttcttgctctgaatttttcaactgttatcttgagctgaattatttactgttttgctaagtgattgttggtgaatttgcagGTGTCATACTCGCTGCTGATCTTCTTCTGCGGGATGTTCATCACGGTGGATGGATTCAACAAGACTGGAATTCCAAACACTCTCTGGGAGCTCGTCGAGC

upper sequence: AT1G02260.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os03g05390.1 (Oryza sativa), 3'ss of exon 3
----------------------gtgaaa-accaaattttcttaaac-tctttagagatacaattcaaagatcttatcaaagttgtaacttttg-cagGTATCGTATTCGCTTTTGATCTTTTTCTGCGGGATGTTCATAACCGTTGATGGATTCAACAAAACTGGTATCCCTACCGCTCTATGGGACCTAATGGAGC
                       ||||  | ||| || ||| || | | || |  |  |||||| |||  || | |    |   |  ||  ||  |||| || || ||  |  ||||||| |||||||||||||| || || || ||||| |||||||||||||| || || | | | || ||||| ||  | || |
gtatgattttacttactgatgcctgaatcaacaatttatctgaatcatgttcattgggacaatt-aaatttcatgtgtttgccatgtctgatgatagGTGTCATACTCATTGCTGATCTTCTTCTGCGGGATGTTTATTACGGTCGATGGCTTCAACAAAACTGGCATACCGAACACACTTTGGGAGCTCGTTGAAC

upper sequence: AT1G02260.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G028521_T04 (Zea mays), 3'ss of exon 4
---------------------------gtgaaaaccaaattttcttaaactctttagagatacaattcaaagatcttatcaaagttgtaacttttgcagGTATCGTATTCGCTTTTGATCTTTTTCTGCGGGATGTTCATAACCGTTGATGGATTCAACAAAACTGGTATCCCTACCGCTCTATGGGACCTAATGGAGC
                              | |||       | ||  |||   |   ||      |||   ||| | |   | ||  |    |||||||| || ||||| ||  |||||||||||||||||||||| || || |||||||| ||||||||||| || || || | | | ||||||||  || |||| |
gtatgctcctcaaattttaattaacactcaataacgggtggatattttacttagtgcggacgacgatcatc-atcctgttgtactttgatgacttgcagGTGTCATATTCACTGCTGATCTTTTTCTGCGGGATGTTTATCACTGTTGATGGCTTCAACAAAACGGGCATACCGAACACACTATGGGAGTTAGTGGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaaactctttagagatacaattcaaagatcttatcaaagttgtaacttttgcagGTATCGTATTCGCTTTTGATCTTTTTCTGCGGGATGTTCATAACCGTTGATGGATTCAACAAAACTGGTATCCCTACCGCTCTATGGGACCTAATGGAGC
                                        ttgtaac  putative branch site (score: 2)
                                              cttttgc  CT-rich tract
               atacaatt  TA-rich tract