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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgcaatgcaacagcttggtttatttccttatacatggcatttaggttattaggtgatcatagtgatgataaaacaatctttttcagGGAATGATTCTTCTGTGGGATTCTGATTCAGGACTTGCCCAACTTGATAAGTACCTGCACAGTAATGATATTCATGTTGTTGCTGGGGCTTTGCTAGGTA

Basic information

species Oryza sativa
transcript LOC_Os09g15750.1
intron # 14
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|58605861|gb|CK033894.1|CK033894
EST:     GGTTATTCAAGAACAAGGAACATGGGAAAGCTAGTGCAGCCGCTAGTCTG                         GGAATGATTCTTCTGTGGGATTCTGATTCAGGACTTGCCCAACTTGATAAG
genomic: GGTTATTCAAGAACAAGGAACATGGGAAAGCTAGTGCAGCCGCTAGTCTGgtaatgcaat ... tctttttcagGGAATGATTCTTCTGTGGGATTCTGATTCAGGACTTGCCCAACTTGATAAG
EST: gi|87008884|gb|CI304827.1|CI304827
EST:     GGTTATTCAAGAACAAGGAACATGGGAAAGCTAGTGCAGCCGCTAGCCTG                         GGAATGATTCTTCTGTGGGATTCTGATTCAGGACTTGCCCAACTTGACAAG
genomic: GGTTATTCAAGAACAAGGAACATGGGAAAGCTAGTGCAGCCGCTAGTCTGgtaatgcaat ... tctttttcagGGAATGATTCTTCTGTGGGATTCTGATTCAGGACTTGCCCAACTTGATAAG
EST: gi|29682161|gb|CB678436.1|CB678436
EST:     GGTTATTCAAGAACAAGGAACATGGGAAAGCTAGTGCAGCCGCTAGTCTG                         GGAATGATTCTTCTGTGGGATTCTGATTCAGGACTTGCCCAACTTGATAAG
genomic: GGTTATTCAAGAACAAGGAACATGGGAAAGCTAGTGCAGCCGCTAGTCTGgtaatgcaat ... tctttttcagGGAATGATTCTTCTGTGGGATTCTGATTCAGGACTTGCCCAACTTGATAAG
EST: gi|58657236|gb|CK045916.1|CK045916
EST:     GGTTATTCAAGAACAAGGAACATGGGAAAGCTAGTGCAGCCGCTAGTCTG                         GGAATGATTCTTCTGTGGGA
genomic: GGTTATTCAAGAACAAGGAACATGGGAAAGCTAGTGCAGCCGCTAGTCTGgtaatgcaat ... tctttttcagGGAATGATTCTTCTGTGGGA

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: 74 (upstream exon), 42 (downstream exon)
Score: 10

ACTCATGACCGCACCATCAGATTCTTCGGGCAGTGGTTCTTCTGGAAACTGGTTATTCAAGAACAAGGAACATGGGAAAGCTAGTGCAGCCGCTAGTCTGgtaatgcaat ... tctttttcagGGAATGATTCTTCTGTGGGATTCTGATTCAGGACTTGCCCAACTTGATAAGTACCTGCACAGTAATGATATTCATGTTGTTGCTGGGGCTTTGCTAGGTA




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatggcatttaggttattaggtgatcatagtgatgataaaacaatctttttcagGGAATGATTCTTCTGTGGGATTCTGATTCAGGACTTGCCCAACTTGATAAGTACCTGCACAGTAATGATATTCATGTTGTTGCTGGGGCTTTGCTAGGTA
                                             tctttttc  CT-rich tract
                                    ataaaacaatcttttt  TA-rich tract