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'   		13  
 5'  3'   		14  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggttttctgaatctagttgtgatgcttttgtttcaattgttcactggccatgtatattttaggggtgcttgcagttggagactgcatttaattttaaaagaaaggggtgaaagctgcttctatgtctgtaaaatgactaactgatgttttttttttctcattttatttgcattcagGTAAAGTCAAACGCTGTTAGGGCTCTTGGATACCTTTTAAGATTTATCAGATTCAATAATCATTCTGACACAGTTGATGACCCAAG

Basic information

species Oryza sativa
transcript LOC_Os08g05670.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g05670.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G446895_T03 (Zea mays), 3'ss of exon 17
gtggttttctgaatctagttgtgatgcttttgtttcaattgttcactggccatgtatattttaggggtgcttgcagttggagactgcatttaattttaaaagaaaggggtgaaagctgcttctatgtctgtaaaatgactaactgatgttttttttttctcattttatttgcattcagGTAAAGTCAAACGCTGTTAGGGCTCTTGGATACCTTTTAAGATTTATCAGATTCAATAATCATTCTGACACAGTTGATGACCCAAG----
                                                               |          |||||||||  |   || ||| | ||| ||       ||     | |   ||| |||    |||  ||                 |  ||| |||| |||||||||||| |||||||||||||| |||||||| || |||| ||||||||||||||||||| | ||  | | |||| |  ||||||||||    
---------------------------------------------------------------gatacagagatagttggagaacgatgttcattgtgaaacaagtaaactaagcaaacctgcttgtatgtgtggtgaaaaaag---------------ttgtttgattttcattcagGTAAAATCAAACGCTGTTAGAGCTCTTGGTTATCTTTCAAGATTTATCAGATTCAATTACCACGCCGGCACAATAAATGACCCAAGGTAG

upper sequence: LOC_Os08g05670.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G446895_T01 (Zea mays), 3'ss of exon 19
gtggttttctgaatctagttgtgatgcttttgtttcaattgttcactggccatgtatattttaggggtgcttgcagttggagactgcatttaattttaaaagaaaggggtgaaagctgcttctatgtctgtaaaatgactaactgatgttttttttttctcattttatttgcattcagGTAAAGTCAAACGCTGTTAGGGCTCTTGGATACCTTTTAAGATTTATCAGATTCAATAATCATTCTGACACAGTTGATGACCCAAG
                                                               |          |||||||||  |   || ||| | ||| ||       ||     | |   ||| |||    |||  ||                 |  ||| |||| |||||||||||| |||||||||||||| |||||||| || |||| ||||||||||||||||||| | ||  | | |||| |  ||||||||||
---------------------------------------------------------------gatacagagatagttggagaacgatgttcattgtgaaacaagtaaactaagcaaacctgcttgtatgtgtggtgaaaaaag---------------ttgtttgattttcattcagGTAAAATCAAACGCTGTTAGAGCTCTTGGTTATCTTTCAAGATTTATCAGATTCAATTACCACGCCGGCACAATAAATGACCCAAG
















RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 46 (upstream exon), 67 (downstream exon)
Score: 7

GTGTACTAGATAAATCAGCCATATCATTGCTGGTTGAAATTGCTTTGCGCCTTGCTAAAGATGGTGAAAAGgtggttttct ... ttgcattcagGTAAAGTCAAACGCTGTTAGGGCTCTTGGATACCTTTTAAGATTTATCAGATTCAATAATCATTCTGACACAGTTGATGACCCAAG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtctgtaaaatgactaactgatgttttttttttctcattttatttgcattcagGTAAAGTCAAACGCTGTTAGGGCTCTTGGATACCTTTTAAGATTTATCAGATTCAATAATCATTCTGACACAGTTGATGACCCAAG
                         ttttttttttctcatt  CT-rich tract
                    tgatgttttttttttc  TA-rich tract