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'   		15  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttcacaagttgaaagagttatttataaaattgtgtgtttacttgatttgtgtcttctttgtacagACAGAAAAACAACCAGCTTGGAGTGGCGTTGATGACAGTGTACCCTGTGGTATTCATTGCCATAAACTG

Basic information

species Zea mays
transcript GRMZM2G157820_T02
intron # 7
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 4 RNA-Seq libraries.


Block sizes: 45 (upstream exon), 48 (downstream exon)
Score: 146

GTGTTTGATTGCAAGCTACATGGGTGTTCTCAAGATTTAGTATTTCCTgtaagttttc ... ctttgtacagACAGAAAAACAACCAGCTTGGAGTGGCGTTGATGACAGTGTACCCTGTGGTATTCATTGCCATAAACTG


Block sizes: 44 (upstream exon), 48 (downstream exon)
Score: 60

GTGTTTGATTGCAAGCTACATGGGTGTTCTCAAGATTTAGTATTTCCTgtaagttttc ... ctttgtacagACAGAAAAACAACCAGCTTGGAGTGGCGTTGATGACAGTGTACCCTGTGGTATTCATTGCCATAAACTG


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 32

GTGTTTGATTGCAAGCTACATGGGTGTTCTCAAGATTTAGTATTTCCTgtaagttttc ... ctttgtacagACAGAAAAACAACCAGCTTGGAGTGGCGTTGATGACAGTGTACCCTGTGGTATTCATTGCCATAAACTG


Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 124

GTGTTTGATTGCAAGCTACATGGGTGTTCTCAAGATTTAGTATTTCCTgtaagttttc ... ctttgtacagACAGAAAAACAACCAGCTTGGAGTGGCGTTGATGACAGTGTACCCTGTGGTATTCATTGCCATAAACTG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaagagttatttataaaattgtgtgtttacttgatttgtgtcttctttgtacagACAGAAAAACAACCAGCTTGGAGTGGCGTTGATGACAGTGTACCCTGTGGTATTCATTGCCATAAACTG
                             acttgat  putative branch site (score: 124)
                                   tttgtgtcttcttt  CT-rich tract
       ttatttataaaattgt  TA-rich tract