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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcctaatacttattatgtggtattaaatgggattaatctaatgcgacatgcaccatagGGACTTGGCTCAAAACAAGTTAAGTGGTGAAATTCCGAATCTAATATATTGGAATGAGGTTCTTCAATACTT

Basic information

species Zea mays
transcript GRMZM2G463904_T03
intron # 6
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|149097382|gb|EE183229.2|EE183229
EST:     GTGGGAGTGATCCCATCGACACTCTCTCAACTTCCAAATTTGAAGATATT                         GGACTTGGCTCAAAACAAGTTAAGTGGTGAAATTCCGAATCTAATATATTG
genomic: GTGGGAGTGATCCCATCGACACTCTCTCAACTTCCAAATTTGAAGATATTgtaagtccta ... tgcaccatagGGACTTGGCTCAAAACAAGTTAAGTGGTGAAATTCCGAATCTAATATATTG
EST: gi|71420953|gb|DR805250.1|DR805250
EST:     GTGGGAGTGATCCCATCGACACTCTCTCAACTTCCAAATTTGAAGATATT                         GGACTTGGCTCAAAACAAGTTAAGTGGTGAAATTCCGAATCTAATATATTG
genomic: GTGGGAGTGATCCCATCGACACTCTCTCAACTTCCAAATTTGAAGATATTgtaagtccta ... tgcaccatagGGACTTGGCTCAAAACAAGTTAAGTGGTGAAATTCCGAATCTAATATATTG

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 3 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 148

GATTTTGAAGAACAACAAACTGGTGGGAGTGATCCCATCGACACTCTCTCAACTTCCAAATTTGAAGATATTgtaagtccta ... tgcaccatagGGACTTGGCTCAAAACAAGTTAAGTGGTGAAATTCCGAATCTAATATATTGGAATGAGGTTCTTCAATACTT


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 66

GATTTTGAAGAACAACAAACTGGTGGGAGTGATCCCATCGACACTCTCTCAACTTCCAAATTTGAAGATATTgtaagtccta ... tgcaccatagGGACTTGGCTCAAAACAAGTTAAGTGGTGAAATTCCGAATCTAATATATTGGAATGAGGTTCTTCAATACTT


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 45

GATTTTGAAGAACAACAAACTGGTGGGAGTGATCCCATCGACACTCTCTCAACTTCCAAATTTGAAGATATTgtaagtccta ... tgcaccatagGGACTTGGCTCAAAACAAGTTAAGTGGTGAAATTCCGAATCTAATATATTGGAATGAGGTTCTTCAATACTT




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatacttattatgtggtattaaatgggattaatctaatgcgacatgcaccatagGGACTTGGCTCAAAACAAGTTAAGTGGTGAAATTCCGAATCTAATATATTGGAATGAGGTTCTTCAATACTT
                            attaatctaat  TA-rich tract