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

gttaaacttttatttgttttatctgcttcacttttgttttaatttttcttttgcggcagcagggtaacccccattttactatggattttagtatgcattcatttaacttcccattacctttatgaattaactaaacagGGTGTGATCGAGTGCCCAATACCAGATAAAGACATACGAAGATTTGATGCAAACATCCGCCTGTTTCCTCCATTCATTGATAATGACATTTGCCCATTGA

Basic information

species Zea mays
transcript GRMZM5G865163_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G865163_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g25980.1 (Oryza sativa), 3'ss of exon 5
gttaaacttttatttgttttatctgcttcacttttgttttaatttttcttttgcggcagcagggtaacccccattttactatggattttagta-tgcattcatttaacttcccattacctttatgaattaactaaacagGGTGTGATCGAGTGCCCAATACCAGATAAAGACATACGAAGATTTGATGCAAACATCCGCCTGTTTCCTCCATTCATTGATAATGACATTTGCCCATTGA
                                                             |  | |  |   ||| |  |   ||||| ||  | | || ||||   ||  ||   | |  |||   | |||||||||||||| || ||||||||||  || ||||||||||| |||||||| ||||||||||| || |||||||||||||| |||||||| |||||||| |||||||
-------------------------------------------------------------gtatcatgcatttttgaaaacatattttggtgcttcttttattttctttttcacc-cttgcatgccgtgactaaacagGGTGTTATTGAGTGCCCAAACCCGGATAAAGACATCCGAAGATTGGATGCAAACATACGGCTGTTTCCTCCATTTATTGATAACGACATTTGTCCATTGA

upper sequence: GRMZM5G865163_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA12G33340.1 (Glycine max), 3'ss of exon 5
gttaaacttttatttgttttatctgcttcacttttgttttaatttttcttttgcggcagcagggtaacccccattttactatg-gattttagtatgcattcatt--taacttcccattacctttatgaattaactaaac-agGGTGTGATCGAGT-GCCCAATACCAGATAAAGACATACGAAGATTTGATGCAAACATCCGCCTGTTTCCTCCATTCATTGATAATGACATTTGCCCATTGA
                          |  | ||  || |   | |     |   | || ||||  |      ||   |  ||| |  | |      |||| |||  |||      ||  ||||||   |||||  | || |   |    ||  ||  |   | |     | |      | |  || | | ||   | |   ||  |                                     
-------------------------gtgtaattgagtgtccctatccagataaagacatcaggaga--tttgatgcaaacatgcggctgtttcccccatttattgataatgatatatgccctttaaccattaaaaacaccattcttcagTCATGTTACTTGAGAAACACTGAGTGGGCATGTGGAGTGGCTGTGTATACAGGCAAGCCCAT--------------------------------

upper sequence: GRMZM5G865163_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA13G37090.1 (Glycine max), 3'ss of exon 5
gttaaacttttatttgttttatctgcttcacttttgttttaatttttcttttgcggcagcagggtaacccccattttactatggattttagtatgcattcatttaacttccc-attacctttatgaat-----taactaaacagGGTGTGATCGAGTGCCCAATACCAGATAAAGACATACGAAGATTTGATGCAAACATCCGCCTGTTTCCTCCATTCATTGATAATGACATTTGCCCATTGA
                                                                                 |  ||| ||     ||   | |||| ||| | |||  || | ||  |     |   |    ||||||| || ||||| ||    ||||||||||||||  | ||||||||||||||||| || |||||||| ||||| ||||||||||| || ||||| || |
--------------------------------------------------------------------------------gttaattatataggtcaactacttaatttctctattctctctgtgtgtatgtgtgtgtctctagGGTGTTATTGAGTGTCCCTATCCAGATAAAGACATCAGGAGATTTGATGCAAACATGCGGCTGTTTCCCCCATTTATTGATAATGATATATGCCCTTTAA

upper sequence: GRMZM5G865163_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT5G44240.1 (Arabidopsis thaliana), 3'ss of exon 5
gttaaacttttatttgttttatctgcttcacttttgttttaatttttcttttgcggcagcagggtaacccccattttactatggattttagtatgcattcatttaacttcccattacctttatgaattaactaaacagGGTGTGATCGAGTGCCCAATACCAGATAAAGACATACGAAGATTTGATGCAAACATCCGCCTGTTTCCTCCATTCATTGATAATGACATTTGCCCATTGA
                                       |||   ||||| |     |      |    ||    || | ||    |||      |  | ||   | ||   ||||   |       ||  |   ||||||||||| || || ||  | |||||||| || || |||||||||||||||||||| ||| | ||||| ||||| ||||| |||||  | ||  | || |
--------------------------------------gtaagacttcttgta-aataatcatatcgttcctggctttccatactatttc-----ctcttatcagattttatattaagct----gtctatgttttcagGGTGTGATTGAATGTCCTGTTCCAGATAAGGATATTCGAAGATTTGATGCAAACATGCGCTTATTTCCGCCATTTATTGACAATGATGTCTGTTCTTTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattttagtatgcattcatttaacttcccattacctttatgaattaactaaacagGGTGTGATCGAGTGCCCAATACCAGATAAAGACATACGAAGATTTGATGCAAACATCCGCCTGTTTCCTCCATTCATTGATAATGACATTTGCCCATTGA
                                         aattaac  putative branch site (score: 2)
                                   tttatgaattaactaa  TA-rich tract