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

gtatagatgcttgtaaatctgatctatcaggtcttttagtactgtaatactattcacatttttaagttcagatgtataaaataactattcaattgctggcagCTGCTCTCGAGAAGCCTCCTGAAAAGAGAAAAGAACATGTAATTAACTTGCAGCGATCAGAAACAGAAATTTTTGCTTCTACACCTCCGCCGCCGCCGCC

Basic information

species Oryza sativa
transcript LOC_Os02g07960.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g07960.3 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G020986_T01 (Zea mays), 3'ss of exon 11
gtatagatgct--tgtaaatctgatctatcaggtcttttagtactgtaatactattcacatttttaagttcagatgtataaaataactattcaattgctggcagCTGCTCTCGAGAAGCCTCCTGAAAAGAGAAAAGAACATGTAATTAACTTGCAGCGATCAGAAACAGAAATTTTTGCTTCTACACCTCCGCCGCCGCCGCC
||||| |||||  || ||||||||   ||| | |  |||  |||  |||| ||                     ||| || | |||  |   || || |||||| |||  | |||||||||||||||||||||||||| ||||||||||| ||| ||||| ||||| |||| || |||||| |  | ||||| || || || ||
gtatatatgctgttgcaaatctgactaatc-gattctttgttaccataatgct---------------------tgtgtatactaatcacg-aactgttggcagTTGCCATTGAGAAGCCTCCTGAAAAGAGAAAAGAGCATGTAATTAATTTGGAGCGAACAGAATCAGAGATCTTTGCTGCAGCGCCTCCTCCACCTCCACC

upper sequence: LOC_Os02g07960.3 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G335638_T01 (Zea mays), 3'ss of exon 11
gtatagatgcttgtaaatctgatctatcaggtcttttagtactgtaatactattcacatttttaagttcagatgtataa--aataactattcaattgctggcagCTGCTCTCGAGAAGCCTCCTGAAAAGAGAAAAGAACATGTAATTAACTTGCAGCGATCAGAAACAGAAATTTTTGCTTCTACACCTCCGCCGCCGCCGCC
||||| ||||||| |||||||| | ||||  ||||||  |||| |||| || ||       | ||||  |||||||||   | |||| ||  |  || | |||| |||  | |||||||||||||||||||||||||| | ||||||||| ||| | ||| ||||| |||| || |||||| |  |||| || || || || ||
gtatatatgcttgcaaatctgaccaatcaattcttttgttactataatgctgtt-------tcaagtatagatgtatatgtactaaccata-agctgtttgcagTTGCCATTGAGAAGCCTCCTGAAAAGAGAAAAGAGCGTGTAATTAATTTGGAACGAACAGAATCAGAGATCTTTGCTGCAGCACCACCTCCACCTCCACC
















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|29631498|gb|CB636507.1|CB636507
EST:     AGAGGTTCCTGAACGGAGGCAGGTTCGTGAAATAAATTTGGCGGTACCAG                         CTGCTCTCGAGAAGCCTCCTGAAAAGAGAAAAGAACATGTAATTAACTTGC
genomic: AGAGGTTCCTGAACGGAGGCAGGTTCGTGAAATAAATTTGGCGGTACCAGgtatagatgc ... ttgctggcagCTGCTCTCGAGAAGCCTCCTGAAAAGAGAAAAGAACATGTAATTAACTTGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactattcacatttttaagttcagatgtataaaataactattcaattgctggcagCTGCTCTCGAGAAGCCTCCTGAAAAGAGAAAAGAACATGTAATTAACTTGCAGCGATCAGAAACAGAAATTTTTGCTTCTACACCTCCGCCGCCGCCGCC
                               aaataac  putative branch site (score: 2)
          atttttaagttcagat  TA-rich tract