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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acatgaaaatgtttgtggtactttaatcagctagggagtgattagatgaatatgcagcatcacactattgatgctaatgcttcacgtttcctatctatagGTTTTGTTGGGTATGCCATTCTTGTTATCACATCCAGTTGAGTACATCTCACGAGCATTCAATCTTGGGCGTGTCTTCATCCATTTCTG

Basic information

species Oryza sativa
transcript LOC_Os01g07720.4
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g07720.3 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G066362_T01 (Zea mays), 3'ss of exon 7
----acatgaaaatgtttgtggtactttaatcagctagggagtgattagatgaatatgcagcatcacactattgatgctaatgcttcacgtttcctatctatagGTTTTGTTGGGTATGCCATTCTTGTTATCACATCCAGTTGAGTACATCTCACGAGCATTCAATCTTGGGCGTGTCTTCATCCATTTCTG
      ||    |   ||| |    | || |  |   |||     ||||||| |||    | ||| |||  ||  | |||||| || ||  |||| |||| ||||||||||||||||||||||||||| | |||||||||||||||||||||||| ||||||||||||| || || || || |||||||||||
ccctttatccttaaacttgagtgtgtctagtatgtctgggg----ttagatggatacaaggtatcgcacagtttgtactaatgatttacaattcccatctgtagGTTTTGTTGGGTATGCCATTCTTGCTGTCACATCCAGTTGAGTACATCTCAAGAGCATTCAATCTCGGTCGCGTGTTTATCCATTTCTG

upper sequence: LOC_Os01g07720.3 (Oryza sativa), 3'ss of exon 6
lower sequence: GLYMA03G37130.1 (Glycine max), 3'ss of exon 6
acatgaaaatgtttgtggtactttaatcagctagggagtgattaga-tga---atatgcagcatca-cactattgatgctaatgctt-cacgtttc-ctat--ctatagGTTTTGTTGGGTATGCCATTCTTGTTATCACATCCAGTTGAGTACATCTCACGAGCATTCAATCTTGGGCGTGTCTTCATCCATTTCTG
         | | | | |  ||| || ||   |  |  |   |||| |||   || | ||   |    | | ||  |  |||  | |  | | ||  |||   ||| || | ||  ||||  | || ||| || | ||| | ||||||   ||||| ||| |||| ||||| ||||| ||||||||||||||||||||
--------gtttctcttgggcttcaa-cattgattggttctctagagtgagcaatgtccaattttggtaatgttagttataactcctatatggttaactactgctacagATATTACTGGGACTTCCTTTCCTGGTTTCATACCCAGTTACATACATATCAAGAGCCTTCAACCTTGGCCGTGTCTTCATCCATTTCTG

upper sequence: LOC_Os01g07720.3 (Oryza sativa), 3'ss of exon 6
lower sequence: GLYMA19G39740.1 (Glycine max), 3'ss of exon 6
acatgaaaatgtttgtggtactttaatcagctagggagtgattagatgaatatgcagcatcaca-ctattgatgctaatgcttcacgtttcctatctatagGTTTTGTTGGGTATGCCATTCTTGTTATCACATCCAGTTGAGTACATCTCACGAGCATTCAATCTTGGGCGTGTCTTCATCCATTTCTG
| ||    | ||  ||    |||        |   || ||||| | |   ||    |    |   | | |  || |||   ||   |    ||  ||| || | || |||||  | || ||| || | ||| |||||||||  ||||| ||| |||| ||||||||||| ||||||||||||||||||||
atattgtcaggtgagtttctcttcttgggcatcaagattgattggttctctagagtgagcaatgtccaattttggtaaca-ttagtgaactcttgctacagATATTATTGGGGCTTCCTTTCCTGGTTTCATATCCAGTTGCATACATATCAAGAGCCTTCAATCTTGGCCGTGTCTTCATCCATTTCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgaatatgcagcatcacactattgatgctaatgcttcacgtttcctatctatagGTTTTGTTGGGTATGCCATTCTTGTTATCACATCCAGTTGAGTACATCTCACGAGCATTCAATCTTGGGCGTGTCTTCATCCATTTCTG
                          tgctaat  putative branch site (score: 2)
                                         tttcctatct  putative PPT
                                              tatctata  TA-rich tract