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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGAGAATTCAGTCACTCCGTTGTCACGCTCTGTATAACCATGGTGCTACCAGACTATCTGTAATTCCAATCCACGCATCACGGTCTAAGGCTCTAAGgtttgtttgattttcttattttcctcattcatttatctcttctgttcttaacatgttctgatgtaccagtattgttgtggttaacattttttctgaactt...

Basic information

species Oryza sativa
transcript LOC_Os06g43630.1
intron # 12
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|86479503|gb|CI122136.1|CI122136
EST:     ACCAGACTATCTGTAATTCCGATCCACGCATCACGGTCTAAGGCTCTAAG                         GTACTTATCTGTTCGCTGGGGCATAGAGTTGCAAAATGTGGTGGTTCTTGT
genomic: ACCAGACTATCTGTAATTCCAATCCACGCATCACGGTCTAAGGCTCTAAGgtttgtttga ... tctgttctagGTACTTATCTGTTCGCTGGGGCATAGAGTTGCAAAATGTGGTGGTTCTTGT
EST: gi|58684428|gb|CK073115.1|CK073115
EST:     ACCAGACTATCTGTAATTCCAATCCACGCATCACGGTCTAAGGCTCTAAG                         GTACTTATCTGTTCGCTGGGGCATAGAGTTGCAAAATGTGGTGGTTCTTGT
genomic: ACCAGACTATCTGTAATTCCAATCCACGCATCACGGTCTAAGGCTCTAAGgtttgtttga ... tctgttctagGTACTTATCTGTTCGCTGGGGCATAGAGTTGCAAAATGTGGTGGTTCTTGT
EST: gi|27576514|gb|CA999208.1|CA999208
EST:     ACCAGACTATCTGTAATTCCAATCCACGCATCACGGTCTAAGGCTCTAAG                         GTACTTATCTGTTCGCTGGGGCATAGAGTTGCAAAATGTGGTGGTTCTTGT
genomic: ACCAGACTATCTGTAATTCCAATCCACGCATCACGGTCTAAGGCTCTAAGgtttgtttga ... tctgttctagGTACTTATCTGTTCGCTGGGGCATAGAGTTGCAAAATGTGGTGGTTCTTGT
EST: gi|163928456|gb|EG715436.1|EG715436
EST:     ACCAGACTATCTGTAATTCCAATCCACGCATCACGGTCTAAGGCTCTAAG                         GTACTTATCTGTTCGCTGGGGCATAGAGTTGCAAAATGTGGTGGTTCTTGT
genomic: ACCAGACTATCTGTAATTCCAATCCACGCATCACGGTCTAAGGCTCTAAGgtttgtttga ... tctgttctagGTACTTATCTGTTCGCTGGGGCATAGAGTTGCAAAATGTGGTGGTTCTTGT
EST: gi|25799628|gb|CA755589.1|CA755589
EST:     GGTCTAAGGCTCTAAG                         GTACTTATCTGTTCGCTGGGGCATAGAGTTGCAAAATGTGGTGGTTCTTGT
genomic: GGTCTAAGGCTCTAAGgtttgtttga ... tctgttctagGTACTTATCTGTTCGCTGGGGCATAGAGTTGCAAAATGTGGTGGTTCTTGT
EST: gi|88314082|gb|CI600084.1|CI600084
EST:     ACCAGACTATCTGTAATTCCAATCCACGCATCACGGTCTAAGGCTCTAAG                         GTACTTATCTGTTCGCTGGGGCATAGAGTTGCAAAATGTGGTGGTTCTTGT
genomic: ACCAGACTATCTGTAATTCCAATCCACGCATCACGGTCTAAGGCTCTAAGgtttgtttga ... tctgttctagGTACTTATCTGTTCGCTGGGGCATAGAGTTGCAAAATGTGGTGGTTCTTGT
EST: gi|29630588|gb|CB635597.1|CB635597
EST:     ACCAGACTATCTGTAATTCCAATCCACGCATCACGGTCTAAGGCTCTAAG                         GTACTTATCTGTTCGCTGGGGCATAGAGTTGCAAAATGTGGTGGTTCTTGT
genomic: ACCAGACTATCTGTAATTCCAATCCACGCATCACGGTCTAAGGCTCTAAGgtttgtttga ... tctgttctagGTACTTATCTGTTCGCTGGGGCATAGAGTTGCAAAATGTGGTGGTTCTTGT
EST: gi|58661565|gb|CK050245.1|CK050245
EST:     ACCAGAATATCTGTAATTCCAATCCACGCATCACGGTCTAAAGCTCTAAG                         GTACTTATCTGTTCGCTGGGGCATATAGTTGCAAAATGTGGTGGTTCTTGT
genomic: ACCAGACTATCTGTAATTCCAATCCACGCATCACGGTCTAAGGCTCTAAGgtttgtttga ... tctgttctagGTACTTATCTGTTCGCTGGGGCATAGAGTTGCAAAATGTGGTGGTTCTTGT
EST: gi|29636933|gb|CB641942.1|CB641942
EST:     ACCAGACTATCTGTAATTCCAATCCACGCATCACGGTCTAAGGCTCTAAG                         GTACTTATCTGTTCGCTGGGGCATAGAGTTGCAAAATGTGGTGGTTCTTGT
genomic: ACCAGACTATCTGTAATTCCAATCCACGCATCACGGTCTAAGGCTCTAAGgtttgtttga ... tctgttctagGTACTTATCTGTTCGCTGGGGCATAGAGTTGCAAAATGTGGTGGTTCTTGT

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: 73 (upstream exon), 54 (downstream exon)
Score: 7

TGATGAGAATTCAGTCACTCCGTTGTCACGCTCTGTATAACCATGGTGCTACCAGACTATCTGTAATTCCAATCCACGCATCACGGTCTAAGGCTCTAAGgtttgtttga ... tctgttctagGTACTTATCTGTTCGCTGGGGCATAGAGTTGCAAAATGTGGTGGTTCTTGTTGGTGAAACTGGTGATTCAGATTACGAAGAATTGTTTGGAGGTCTTCAT




<











<


<