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

gtgagttgcccctgtgatttcctgtactgatcatcctagttatgcaacttagtgaattttttctctttcatagtacagCGATGTCAGCAAGAACAATTTAAATGGTGAAATCCCATACCAGCTTCCACCAAATGTGGTTCAGTT

Basic information

species Oryza sativa
transcript LOC_Os09g38700.1
intron # 3
splice site 3'
intron type U2

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: 42 (upstream exon), 45 (downstream exon)
Score: 2

AGCAGCAACTTGTCGGGGCTTGGATTAAGCGGCACGCTAGGTTATCAGCTATCGAGCTTGAAATCAGTAACCAAATTgtgagttgcc ... catagtacagCGATGTCAGCAAGAACAATTTAAATGGTGAAATCCCATACCAGCTTCCACCAAATGTGGTTCAGTT




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtactgatcatcctagttatgcaacttagtgaattttttctctttcatagtacagCGATGTCAGCAAGAACAATTTAAATGGTGAAATCCCATACCAGCTTCCACCAAATGTGGTTCAGTT
 tactgat  putative branch site (score: 2)
                                 ttttttctctttcat  putative PPT
                         ttagtgaatttttt  TA-rich tract