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'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   		25  
 5'  3'   		26  
 5'  3'   		27  
 5'  3'   		28  
 5'  3'   		29  
 5'  3'   		30  
 5'  3'   		31  
 5'  3'   		32  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatgacgtgggcaaggagatggagctggatcttattaaacaatatagtcaggttgactgttgatatatactgttcattatcgctttgcatattgtctaacattgaatcttcagGTTGAACGGATATTTGCTGATAGGGTCAGCAAAGCTGATGGAGATGATCTGGTTCCCGAATATTTAGTAAAATGGCAAGGACTTCCTTATGCAGAATCTA

Basic information

species Zea mays
transcript GRMZM2G141258_T01
intron # 6
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: 49 (upstream exon), 49 (downstream exon)
Score: 116

GTTGAGgtacatgacg ... gaatcttcagGTTGAACGGATATTTGCTGATAGGGTCAGCAAAGCTGATGGAGATGATCTGGTTCCCGAATATTTAGTAAAATGGCAAGGACTTCCTTATGCAGAATCTA


Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 151

GTTGAGgtacatgacg ... gaatcttcagGTTGAACGGATATTTGCTGATAGGGTCAGCAAAGCTGATGGAGATGATCTGGTTCCCGAATATTTAGTAAAATGGCAAGGACTTCCTTATGCAGAATCTA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 169

GTTGAGgtacatgacg ... gaatcttcagGTTGAACGGATATTTGCTGATAGGGTCAGCAAAGCTGATGGAGATGATCTGGTTCCCGAATATTTAGTAAAATGGCAAGGACTTCCTTATGCAGAATCTA


Block sizes: 40 (upstream exon), 49 (downstream exon)
Score: 118

GTTGAGgtacatgacg ... gaatcttcagGTTGAACGGATATTTGCTGATAGGGTCAGCAAAGCTGATGGAGATGATCTGGTTCCCGAATATTTAGTAAAATGGCAAGGACTTCCTTATGCAGAATCTA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgatatatactgttcattatcgctttgcatattgtctaacattgaatcttcagGTTGAACGGATATTTGCTGATAGGGTCAGCAAAGCTGATGGAGATGATCTGGTTCCCGAATATTTAGTAAAATGGCAAGGACTTCCTTATGCAGAATCTA
                                   gtctaac  putative branch site (score: 118)
                                                tcttc  putative PPT
     tatatact  TA-rich tract