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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtatgtacagttacacacacgtatagtacgtgactcgtagctgtgcgcgtgtacgtgtaccggccgcagtagttgcaccggacgcgcgcgcgcgcggcagaatgcgatgattgcaatgatctgatatatacggggttgatttttttgcagGAGCTACTACAGGTGCACGACGCAGAAGTGCCCGGTGAAGAAGCGGGTGGAGCGGTCGTACCAGGACCCGGCGGTGGTGATCACCACGTACGAGGGCAAG

Basic information

species Oryza sativa
transcript LOC_Os01g47560.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g47560.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G151763_T01 (Zea mays), 3'ss of exon 2
gtacgtatgtacagttacacacacgtatagtacgtgactcgtagctgtgcgcgtgtacgtgtaccggccgcagtagttgcaccggacgc-gcgcgcgcgcggcagaatgcgatgattgcaatgatctgatatatacggggttgatttttttgcagGAGCTACTACAGGTGCACGACGCAGAAGTGCCCGGTGAAGAAGCGGGTGGAGCGGTCGTACCAGGACCCGGCGGTGGTGATCACCACGTACGAGGGCAAG
                                                   ||   | |||| |  |  | ||   | ||     | || |||   ||| |    ||||    ||  ||   || |      ||   | ||   | |   ||||||||||||||| |||||||||||||||||||||| ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
---------------------------------------------------cgcaca-gtgtccatgatgtagctatagctagacatgctgcgtttgcgtgagctaatggtgggagcgctgcgaccgtg---atggcgcgtacgtgtacgtgcagGAGCTACTACCGGTGCACGACGCAGAAGTGCCCCGTGAAGAAGCGGGTGGAGCGGTCGTCCCAGGACCCGGCGGTGGTGATCACCACGTACGAGGGCAAG

upper sequence: LOC_Os01g47560.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM5G812272_T02 (Zea mays), 3'ss of exon 2
gtacgtatgtacagttacacacacgtatagtacgtgactcgtagctgtgcgcgtgtacgtgtaccggccgcagtagttgcaccggacgcgcgcgcgcgcggcagaatgcg-atgattgcaatgatctgatatatacggggttgatttttttgcagGAGCTACTACAGGTGCACGACGCAGAAGTGCCCGGTGAAGAAGCGGGTGGAGCGGTCGTACCAGGACCCGGCGGTGGTGATCACCACGTACGAGGGCAAG
||||||  |||||   |||  ||||||||    |  |  | || ||| ||   || |||| ||     | |     ||  | |  || |     ||  ||| |   |    ||   |||| ||| || ||    | || ||          |||||||||||||| ||||||||||||||| |||||| |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||| ||||||
gtacgtg-gtacatgcaca-gcacgtatatacagctataccta-ctg-gctactgcacgtatatacagcacctctcttcgatcctactccatgacgtacggtacggtagacattgctgca-tgagctaatggtgatggcgt----------gcagGAGCTACTACCGGTGCACGACGCAGAGGTGCCCCGTGAAGAAGCGGGTGGAGCGGTCGCACCAGGACCCGGCGGTGGTGATCACCACGTACGAAGGCAAG

upper sequence: LOC_Os01g47560.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA08G08720.1 (Glycine max), 3'ss of exon 2
gtacgtatgtacagttacacacacgtatagtacgtgactcgtagctgtgcgcgtgtacgtgtaccggccgcagtagttgcaccggacgcgcgcgcgcgcggcagaatgcgatgattgcaatgatctgatatatacggggttgatttttttgcagGAGCTACTACAGGTGCACGACGCAGAAGTGCCCGGTGAAGAAGCGGGTGGAGCGGTCGTACCAGGACCCGGCGGTGGTGATCACCACGTACGAGGGCAAG
                                          |   ||     | |   |          |     ||| |   |    |   || |   |   ||   || | ||  |||    ||||  ||| |  | | |||     |||||||||||||||||||||| || ||||||||| | |||||||| || |||||| |||| |  ||||||||  |    ||||| || ||||| || ||  | 
------------------------------------------aatggtttcgatttgtttaatttaattaccaatattgtagtagtaatg---gc-caaagtgaaaaatgaagttt--aataga-tgatgaatatgatgataatt-----gcagGAGCTACTACAGGTGCACTACACAGAAGTGCACAGTGAAGAAACGCGTGGAGAGGTCATTTCAGGACCCAACCACTGTGATAACAACGTATGAAGGTCAA

upper sequence: LOC_Os01g47560.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA05G25770.1 (Glycine max), 3'ss of exon 2
gtacgtatgtacagttacacacacgtatagtacgtgactcgtagctgtgcgcgtgtacgtgtaccggccgcagtagttgcaccggacgcgcgcgcgcgcggcagaatgcgatgattgcaatgatctgatatatacggggttgatttttttgcagGAGCTACTACAGGTGCACGACGCAGAAGTGCCCGGTGAAGAAGCGGGTGGAGCGGTCGTACCAGGACCCGGCGGTGGTGATCACCACGTACGAGGGCAAG
                                            |  || || |  |  | |       ||| || ||| |   |    |   || |   |   ||   || | |||  ||   |||| |||   | |  ||||  | |||||||||||||||||||||||| || ||||||||| | |||||||| || |||||| |||| |  ||||||||  |    ||||| || ||||| || ||  ||
--------------------------------------------caatg-gcttcaatttcttggtttagcaata-ttgtagtagtaatg---gc-caaagtgaaaaatgaagtttg--atag-ctga-ataagggtgaatgataatattgcagGAGCTACTACAGGTGCACAACACAGAAGTGCACAGTGAAGAAACGCGTGGAGAGGTCATTTCAGGACCCAACCACTGTGATAACAACGTATGAAGGTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcagaatgcgatgattgcaatgatctgatatatacggggttgatttttttgcagGAGCTACTACAGGTGCACGACGCAGAAGTGCCCGGTGAAGAAGCGGGTGGAGCGGTCGTACCAGGACCCGGCGGTGGTGATCACCACGTACGAGGGCAAG
                                            tttttttgc  CT-rich tract
                                        ttgattttttt  TA-rich tract