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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaatattcttcactgtgatagttcagttaatgatattttttgacgcatctaagagatcacattcttgtagGCTGGATTCGTGGAAAGGACCCGACAAGGCCCATCCATTATGAAGGAGGTGGTTCTAGAACATCCTCCACTGATATTGTATGCCCAATGTACATGCGTGT

Basic information

species Oryza sativa
transcript LOC_Os01g72340.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g72340.2 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G032496_T01 (Zea mays), 3'ss of exon 2
gtaaaatattcttcactgtgatagttcagttaatgatattttttgacgcatctaagagatcacattcttgtagGCTGGATTCGTGGAAAGGACCCGACAAGGCCCATCCATTATGAAGGAGGTGGTTCTAGAACATCCTCCACTGATATTGTATGCCCAATGTACATGCGTGT
|||||||||||||  ||||   |||| | ||  || || || |     |||||||  | | |||||||| |||| |||||||||| || ||| || ||||| | | |||||||||| ||||||||||| |||||||| ||||| |||||||| ||||| ||||| ||||||||
gtaaaatattcttacctgt--cagtttaatttctg-tacttct-----catctaatgg-taacattcttctagGTTGGATTCGTGAAAGGGATCCAACAAGACTCCTCCATTATGAGGGAGGTGGTTCCAGAACATCATCCACAGATATTGTGTGCCCCATGTATATGCGTGT
















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|58692909|gb|CK081596.1|CK081596
EST:     GTCCTTGGGAAATGAATCTTCGTATGGACCAAATCACTCAGCCATGTCTG                         GCTGGATTCGTGGAAAGGACCCGACAAGGCCCATCCATTATGAAGGAGGTG
genomic: GTCCTTGGGAAATGAATCTTCGTATGGACCAAATCACTCAGCCATGTCTGgtaaaatatt ... attcttgtagGCTGGATTCGTGGAAAGGACCCGACAAGGCCCATCCATTATGAAGGAGGTG
EST: gi|38568808|gb|CD671023.1|CD671023
EST:     GGGAAATGAATCTTCGTATGGACCAAATCACTCAGCCATGTCTG                         GCTGGATTCGTGGAAAGGACCCGACAAGGCCCATCCATTATGAAGGAGGTG
genomic: GGGAAATGAATCTTCGTATGGACCAAATCACTCAGCCATGTCTGgtaaaatatt ... attcttgtagGCTGGATTCGTGGAAAGGACCCGACAAGGCCCATCCATTATGAAGGAGGTG
EST: gi|29657376|gb|CB653651.1|CB653651
EST:     GTCCTTGGGAAATGAATCTTCGTATGGACCAAATCACTCAGCCATGTCTG                         GCTGGATTCGTGGAAAGGACCCGACAAGGCCCATCCATTATGAAGGAGGTG
genomic: GTCCTTGGGAAATGAATCTTCGTATGGACCAAATCACTCAGCCATGTCTGgtaaaatatt ... attcttgtagGCTGGATTCGTGGAAAGGACCCGACAAGGCCCATCCATTATGAAGGAGGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatagttcagttaatgatattttttgacgcatctaagagatcacattcttgtagGCTGGATTCGTGGAAAGGACCCGACAAGGCCCATCCATTATGAAGGAGGTGGTTCTAGAACATCCTCCACTGATATTGTATGCCCAATGTACATGCGTGT
                      ttttgac  putative branch site (score: 3)
                                            cattctt  putative PPT
         agttaatgatattttt  TA-rich tract