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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttgtactctattttcgcggtaaacgattagagtttctagctaatgtggtcttgacttgtacagGTTGTTGTTATAAAAGATATCATTAGACCACCAAAGAAGGAAGATTTCGTTGATGTTTATATAGTTTTTGAGTTAATGGATACTGATCTTCATCAGATTA

Basic information

species Arabidopsis thaliana
transcript AT4G11330.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G11330.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os10g38950.1 (Oryza sativa), 3'ss of exon 2
------------------------gtaagttttgtactctattttcgcggtaaacgattagagtttctag-ctaatg-tggtcttgac-ttg---tacagGTTGTTGTTATAAAAGATATCATTAGACCACCAAAGAAGGAAGATTTCGTTGATGTTTATATAGTTTTTGAGTTAATGGATACTGATCTTCATCAGATTA
                          |     |||  |  ||||| |    | ||  ||| |   | ||| || ||| || | || ||  ||    |||| || |||  ||||| || || ||| | || ||||  |  ||  | ||   ||||||||| || |||| |||||| |||||||||||||| |||||||| |
ttccttttttttttgttgggcggtcaagagcgtgtgatacatttttgactcacacatttatatcatatagtctgatggtgattttaacactggatcacagATTATTGCCATAAAGGACATAATTCGCCCCCCAAGAAGAGACAACTTTAATGATGTTTACATTGTTTCTGAGTTGATGGATACTGATCTCCATCAGATCA

upper sequence: AT4G11330.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA11G02420.1 (Glycine max), 3'ss of exon 2
---gtaagttttgtactctattttcgcgg--taaacgattagagtttctagctaatgtggtc------ttgacttgtacagGTTGTTGTTATAAAAGATATCATTAGACCACCAAAGAAGGAAGATTTCGTTGATGTTTATATAGTTTTTGAGTTAATGGATACTGATCTTCATCAGATTA
      |  |||| | |||  |||  | |  ||| |  ||    ||||||  |   ||  ||      |   ||| | ||| |  ||| ||| |  ||||||||  |||| || |  ||||| |  || | ||||||||| || |||| |||||| ||||| |||||||||||||||||||
gtatctaactttgaattctcctttttctgattaagctcttcctatttctatttctagtaatcaatgaatcttcttttgcagATAATTGCTATTAGGGATATCATACGACCTCCCAGAAAGGATGCCTTTGATGATGTTTACATTGTTTATGAGTTGATGGACACTGATCTTCATCAGATTA

upper sequence: AT4G11330.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA01G43100.1 (Glycine max), 3'ss of exon 2
-----------------------gtaagttttgtactctattttcgcggtaaacgattagagtttc-tagctaatgtggtcttgacttgtacagGTTGTTGTTATAAAAGATATCATTAGACCACCAAAGAAGGAAGATTTCGTTGATGTTTATATAGTTTTTGAGTTAATGGATACTGATCTTCATCAGATTA
                        | || ||  ||  || ||         ||   |    || |  ||   ||||   ||||  ||| | ||| |  |||  || |  ||||||||  |||| || |  ||||| |  |||  ||||||||| || |||| ||| || ||||| |||||||||||||||||||
gtatctaactttgacttctctttttcagattaataagctcttcctatttctaattttctatgtctagtaatcaatg-aatctt--cttttgcagATAATTGCCATTAGGGATATCATACGACCTCCCAGAAAGGATGCCTTCAATGATGTTTACATTGTTTATGAATTGATGGACACTGATCTTCATCAGATTA

upper sequence: AT4G11330.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv02s0025g00270.t01 (Vitis vinifera), 3'ss of exon 2
---------------------------------gtaagttttgtactctattttcgcggtaaacgattagagtttctagctaatgtggtcttgacttgt-acagGTTGTTGTTATAAAAGATATCATTAGACCACCAAAGAAGGAAGATTTCGTTGATGTTTATATAGTTTTTGAGTTAATGGATACTGATCTTCATCAGATTA
                                   |  | |  |   |||||||  ||    |    | || |   |  | | |    ||||  ||||  ||||||| |||  || || || || ||  |||||||||||||||||  ||||  |||||| || || |||| ||| || ||||| ||||||||||||||||| |
tttgccttgttatgtttgtctgggagtgtgtgtacagttatcatgacctattttttcgcctgaaacatggaatcattgcccagt----tctttccttgccacagGTTATTGCCATCAAGGACATTATACGACCACCAAAGAAGGAAACTTTCAATGATGTCTACATTGTTTATGAATTGATGGACACTGATCTTCATCAGATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattttcgcggtaaacgattagagtttctagctaatgtggtcttgacttgtacagGTTGTTGTTATAAAAGATATCATTAGACCACCAAAGAAGGAAGATTTCGTTGATGTTTATATAGTTTTTGAGTTAATGGATACTGATCTTCATCAGATTA
                                        tcttgac  putative branch site (score: 3)