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

gttagaatttgcattcttctcagtttcatattgtgtcaaatcaatagtgtatcatcgactttgaggccaggaatgtcttaggttgatcttttgttgcggttctctagGTAATAGTGGAGTATAAGACTAGAGATGCTTCCATGAATATCATCAGCCGGGTAGGAAAGCTATCTCTCATTGATCTTGCGGGTTCTGAAAGAGCGCTAG

Basic information

species Arabidopsis thaliana
transcript AT1G18550.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G18550.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os01g42070.1 (Oryza sativa), 3'ss of exon 4
gttagaatttgcattcttctcagtttcatattgtgtcaaatcaatagtgtatcatcgactttgaggccaggaatgtcttaggttgatcttttgttgcggttctctagGTAATAGTGGAGTATAAGACTAGAGATGCTTCCATGAATATCATCAGCCGGGTAGGAAAGCTATCTCTCATTGATCTTGCGGGTTCTGAAAGAGCGCTAG---
         | ||||||  |  || |  |     ||||        |   | |||   |    |||   ||| ||  ||      | | ||||       |||  |||| || || || ||||   | | |||||     |     ||  | |  || || |||||||| ||||||||||||||||| || || |||||||| ||||   
--------gtacattctaatatgtgttgtg----gtcattctttctgaacaacatgatcccacaggtttggattggattgatgaaaacctttga---atatctgcagGTCATCGTCGAATATAGATCCATAGATGGAGGTA---GCATAGTGACGCGAGTTGGAAAGCTCTCTCTCATTGATCTTGCTGGATCAGAAAGAGCTCTAGCAA

upper sequence: AT1G18550.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv17s0000g04330.t01 (Vitis vinifera), 3'ss of exon 4
gttagaatttgcattcttctcagtttcatattgtgtcaaatcaatagtgtatcatcgactttgaggccaggaatgtc--ttaggttgatcttttgttgcggttctct-agGTAATAGTGGAGTATAAGACTAGAGATGCTTCCATGAATATCATCAGCCGGGTAGGAAAGCTATCTCTCATTGATCTTGCGGGTTCTGAAAGAGCGCTAG
       |    ||    || |    | | || | ||   | | |     || ||  | |||  |  | | | | |   || | || ||  | || | |  ||  || ||||  | || || || || | || ||||||||| ||||||||||| |  ||||| || ||||| || || ||||||||||| || ||||||||||| || |
------gtgcttatgagacttaagaccttgttatttcctgtaatt--ccaattat-aattttatgttctgaatttttaatttgttttattctgtgatactttttcctcagGTTGTGGTTGAATACAAAATTAAAGATGCTTCTATGAATATCATTAATCGGGTGGGGAAGCTGTCACTGATTGATCTTGCTGGGTCTGAAAGAGCTCTTG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catcgactttgaggccaggaatgtcttaggttgatcttttgttgcggttctctagGTAATAGTGGAGTATAAGACTAGAGATGCTTCCATGAATATCATCAGCCGGGTAGGAAAGCTATCTCTCATTGATCTTGCGGGTTCTGAAAGAGCGCTAG
                            ggttgat  putative branch site (score: 5)
                                               ttctct  putative PPT
                                 atctttt  TA-rich tract