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

gtggtacccaaactacagaaatcctgaactaattggcttaattctgtgtctgtttacatttatcaaagacatagctaaggataggcccttaattatctttccttctgtctgaatttgtttaacagatatagtgatttcttgcagATATTTATTCAAACTGGGTATCCTCTAGACTTGCCGTCTGGGACTCTTGGGAGTTATTGCATCTATGAGTACCACATG

Basic information

species Arabidopsis thaliana
transcript AT2G19880.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G19880.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G061419_T01 (Zea mays), 3'ss of exon 6
gtggtacccaaactacagaaatcctgaactaattggcttaattctgtgtctgtttacatttatcaaagacatagctaaggataggcccttaattatctttccttctgtctgaatttgtttaacagatatagtgatttcttgcagATATTTATTCAAACTGGGTATCCTCTAGACTTGCCGTCTGGGACTCTTGGGAGTTATTGCATCTATGAGTACCACATG
                                                                     | |      | |    ||     |  ||| |    ||  ||| |||    |   |    |  |  |  || |||||||||||| |||||||| ||||| || ||||| || ||||| | | | || || |||||||| ||||| |||||||||
----------------------------------------------------------------gtctgctttttcgtgaacccccctcccttcttctattgccctcgctgcattaacattgtatgctt--ttgtgcctggcagATATTTATACAAACTGGATATCCCCTTGACTTACCTTCTGGCAGTTTGGGCAGCTATTGCATATATGAATACCACATG

upper sequence: AT2G19880.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA16G08510.1 (Glycine max), 3'ss of exon 5
gtggtacccaaactacagaaatcctgaactaattggcttaattctgtgtctgtttacattta-tcaaagacatagctaaggataggcccttaattatctttccttctgtctgaatttgtttaacagatatagtgatttcttgcagATATTTATTCAAACTGGGTATCCTCTAGACTTGCCGTCTGGGACTCTTGGGAGTTATTGCATCTATGAGTACCACATG
                  | | | | ||  |||| | ||  |  ||||  ||||| | ||   |     |   |  ||   ||||  ||       |    || | ||  |  | |  || ||| | |||  || ||     ||||||||||||||||| || || ||||| || ||||| ||||| | ||| |||||||| ||||||||||| ||||| |||
----------------gtatagcttaaaagaatttgttt--tcttgtggttgttttctttaggtgtttaattgaaatatttatagttccacttgcctaaaaccatttggttacactctttcaactgttatcatgctta---acagATATTTATTCAAACCGGATACCCTCTTGATTTGCCTTCTGGAAGTCTAGGGAGTTACTGCATCTATGAATACCATATG

upper sequence: AT2G19880.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA01G01130.1 (Glycine max), 3'ss of exon 5
gtggtacccaaactacagaaatcctgaactaattggcttaattctgtg--tctgtttacatttatcaaagacatagctaaggataggcccttaattatctttccttctgtctgaatttgtttaacagatatagtgatttcttgcagATATTTATTCAAACTGGGTATCCTCTAGACTTGCCGTCTGGGACTCTTGGGAGTTATTGCATCTATGAGTACCACATG
                  | | | | ||  |||| | |   |   ||   | | ||||  | | | |  || |||  ||  | |   | |||   ||     || | ||  |  | |  || ||| | |||  || ||     ||||||||||||||||| || || ||||| || ||||| ||||| | ||| |||||||| ||||||||||| ||||| |||
----------------gtatagcttaaaagaatttgttccttgtggttgttttctttaggtgtttaattgaaatatttatagttc--cacttgcctaaaa--ccatttggttacactctttcaactgttatgatgctta---acagATATTTATTCAAACCGGATACCCTCTTGATTTGCCATCTGGAAGTCTAGGGAGTTACTGCATCTATGAATACCATATG

upper sequence: AT2G19880.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA08G03760.1 (Glycine max), 3'ss of exon 6
gtggtacccaaactacagaaatcctgaactaattggcttaattctgtgtctgtttacatttatcaaagacatagctaaggataggcccttaattatctttcctt--ctgtctgaatttgtttaacagatatagtgatttcttgcagATATTTATTCAAACTGGGTATCCTCTAGACTTGCCGTCTGGGACTCTTGGGAGTTATTGCATCTATGAGTACCACATG
                                 |  |||||   | |||   ||    ||| |  |||  ||   | || ||      |   ||  ||| |||    | | | | | || |    |  |    ||||   | ||||||||||||||||||||| || ||||| ||  |||| ||||| |  || || ||||| ||||||||||| ||||| |||
------------------------------gtctaacttaaaatt-tgttcattgttctttttttaagtgattaattagaatta-ttatggtttcacttccctgaattattttattatggtct-taactgctttgatgcttagcagATATTTATTCAAACTGGATACCCTCTCGATCTGCCATCTGGAAGCCTGGGAAGTTACTGCATCTATGAATACCATATG

upper sequence: AT2G19880.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA05G35860.1 (Glycine max), 3'ss of exon 5
gtggtacccaaactacagaaatcctgaactaattggcttaattctgtgt-ctgtttacatttatcaaagacatagctaaggataggcccttaattatctttcctt--ctgtctgaatttgtttaacagatatagtgatttcttgcagATATTTATTCAAACTGGGTATCCTCTAGACTTGCCGTCTGGGACTCTTGGGAGTTATTGCATCTATGAGTACCACATG
                            |||| |   | || | ||| |  ||||    ||| |  |||  ||   | || ||      |   ||  ||| |||    | | | | | || |    |  |    ||||   | ||||||||||||||||||||| || ||||| ||  |||| ||||| |  || || ||||| ||||||||||| ||||| |||
--------------------------gtctaact---taaaatttgtttattgttgttctttttttaagtgattagttagaatta-ttatggtttcacttccctgaattattttattatggtct-taactgctttgatgcttagcagATATTTATTCAAACTGGATACCCTCTTGATCTGCCATCTGGAAGCCTGGGAAGTTACTGCATCTATGAATACCATATG

upper sequence: AT2G19880.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 6
----------------------------gtggtacccaaactacagaaatcctgaactaat-tggcttaattctgtgtctgtttacat----ttatcaaagacatagctaaggataggcccttaattatctttccttctg---tctgaatttgtttaacagatatag-tgatttcttgcagATATTTATTCAAACTGGGTATCCTCTAGACTTGCCGTCTGGGACTCTTGGGAGTTATTGCATCTATGAGTACCACATG
                             |  || | |    ||    ||  | | ||||| | | || ||  | | ||   ||   |    || | | |    ||  || |  |  |      |||   |    |||||   |     |||  |   | ||| | | ||    | ||||||||||||||||||| || |||||||| || ||||| ||||| | | | || ||||| ||||| || || || || |||
gtgtatttatgcacataaactaccatgccttttatctatgtaacttgcatttttatctaatcttgtttgatattttttccccttttgtgttttttttatatgtgtacttatgattttggttggcattgattggaattctggaatgcccttttaatggtctgattttgctggagacgtgcagATATTTATTCAAACCGGATATCCTCTTGATTTGCCTTCTGGAAGTTTAGGAAGTTACTGCATTTACGAATATCATATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taattatctttccttctgtctgaatttgtttaacagatatagtgatttcttgcagATATTTATTCAAACTGGGTATCCTCTAGACTTGCCGTCTGGGACTCTTGGGAGTTATTGCATCTATGAGTACCACATG
                           gtttaac  putative branch site (score: 3)
                                             tttcttgc  putative PPT
                      aatttgtttaa  TA-rich tract