Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGATCAGAAGCTCGACTGGGCTGACATTCTCTTCCTCAATACGCTGCCAGTGCAGAACAGGAATTTCAGATTCTGGCCTAACCAACTTGCTAAATTCAGgtaagtacatagtccgatttgatctgatggtgatgtttattttgcaacatgaactgcaaacctgagtgtgattaatttag

Basic information

species Oryza sativa
transcript LOC_Os01g24980.1
intron # 3
splice site 5'
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|58662987|gb|CK051673.1|CK051673
EST:     GTGCAGAACAGGAATTTCAGATTCTGGCCTAACCAACTTGCTAAATTCAG                         ATCGGCACTGGACAAATACTCTGCTGCTGTGAAGAGCATAGTGGATTTCCT
genomic: GTGCAGAACAGGAATTTCAGATTCTGGCCTAACCAACTTGCTAAATTCAGgtaagtacat ... attaatttagATCGGCACTGGACAAATACTCTGCTGCTGTGAAGAGCATAGTGGATTTCCT
EST: gi|29641826|gb|CB646833.1|CB646833
EST:     GTGCAGAACAGGAATTTCAGATTCTGGCCTAACCAACTTGCTAAATTCAG                         ATCGGCACTGGACAAATACTCTGCTGCTGTGAAGAGCATAGTGGATTTCCT
genomic: GTGCAGAACAGGAATTTCAGATTCTGGCCTAACCAACTTGCTAAATTCAGgtaagtacat ... attaatttagATCGGCACTGGACAAATACTCTGCTGCTGTGAAGAGCATAGTGGATTTCCT
EST: gi|29663537|gb|CB659812.1|CB659812
EST:     GTGCAGAACAGGAATTTCAGATTCTGGCCTAACCAACTTGCTATATTCAT                         ATCGGCACTGGACAAATACTCTGCTGCTGTGAAGAGCATAGTGGATTTCCT
genomic: GTGCAGAACAGGAATTTCAGATTCTGGCCTAACCAACTTGCTAAATTCAGgtaagtacat ... attaatttagATCGGCACTGGACAAATACTCTGCTGCTGTGAAGAGCATAGTGGATTTCCT

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: 70 (upstream exon), 70 (downstream exon)
Score: 6

AAGATCAGAAGCTCGACTGGGCTGACATTCTCTTCCTCAATACGCTGCCAGTGCAGAACAGGAATTTCAGATTCTGGCCTAACCAACTTGCTAAATTCAGgtaagtacat ... attaatttagATCGGCACTGGACAAATACTCTGCTGCTGTGAAGAGCATAGTGGATTTCCTCTTGGTTACAGTGGCGAACAACTTGGGAGTGGATCCAGAGGTGATTGCG




<











<


<