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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGATAATGCACTGGATTATGCAGCAAATTTTTCACACATGCTTGGGTTTGATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCACACgtaattcattccatccttgttttagtttctatttatttctaaaagacttggtttgatttctttttcctttcacctgtgttcttccag

Basic information

species Oryza sativa
transcript LOC_Os02g10070.2
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G063909_T03 (Zea mays), 5'ss of exon 11
--------------CTGATAATGCACTGGATTATGCAGCAAATTTTTCACACATGCTTGGGTTTGATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCACACgtaattcat--tccatccttgttttagtttctatttatttctaaaagacttggtttgatttctttttcctttcacctgtgttcttccag
              ||||| || | ||||||||||| |||||||| ||||| |||||||| ||||| || ||||  ||||| ||| ||||||| ||  || ||||||| ||| |||| ||     ||||||  | |||   ||| | ||   || |  |||   | ||||  |  | |  | || | ||||||||| ||| ||
GAAATCAATAGAAGCTGATGATTCTCTGGATTATGCGGCAAATTTATCACATATGCTTGGTTTTGACGACCCCAGGATGCTGGAGCTGATGCGGCTCCATgtaacaattcacgcgtacttttgcatccatctctatttctatttttgttatgttttggaagtacttgttttttcccctcatactgtgacctgtgttgttctag

upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G063851_T04 (Zea mays), 5'ss of exon 12
CTGATAATGCACTGGATTATGCAGCAAATTTTTCACACATGCTTGGGTTTGATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCACACgtaattcat--tccatccttgttttagtttctatt-tatttctaaaagacttggtttgatttcttttt----cctttcacctgtgttcttccag
| |||||| |  |||| ||||| |||||||| |||||||||||||| ||||| || || |||||||| ||| ||||||| || ||| ||||||| |||||||||||     |||||||||||||    || |||| | ||||  ||  ||| | |||  | || |  |    ||| ||||||||||||||| ||
CCGATAATTCTTTGGACTATGCGGCAAATTTCTCACACATGCTTGGTTTTGACGACCCAAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACACgtaattttgcatccatccttgtttgtacttttattatgtttcagaagtactcgttttcctctcatactgtgacctgtcacctgtgttcttctag

upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G063909_T01 (Zea mays), 5'ss of exon 11
CTGATAATGCACTGGATTATGCAGCAAATTTTTCACACATGCTTGGGTTTGATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCACACgtaattcat--tccatccttgttttagtttctatttatttctaaaagacttggtttgatttctttttcctttcacctgtgttcttccag
||||| || | ||||||||||| |||||||| ||||| |||||||| ||||| || ||||  ||||| ||| ||||||| ||  || ||||||| ||| |||| ||     ||||||  | |||   ||| | ||   || |  |||   | ||||  |  | |  | || | ||||||||| ||| ||
CTGATGATTCTCTGGATTATGCGGCAAATTTATCACATATGCTTGGTTTTGACGACCCCAGGATGCTGGAGCTGATGCGGCTCCATGTAACAATTCACGCgtacttttgcatccatctctatttctatttttgttatgttttggaagtacttgttttttcccctcatactgtgacctgtgttgttctag

upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G064023_T01 (Zea mays), 5'ss of exon 13
CTGATAATGCACTGGATTATGCAGCAAATTTTTCACACATGCTTGGGTTTGATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCACACgtaattcat--tccatccttgttttagtttctatt-tatttctaaaagacttggtttgatttctttttcctttcacctgtgttcttccag
|||| ||| | ||||||||||| |||||||| |||||||||||||| |||||||| || |||||||| ||| ||||||| || ||| ||||||| |||||||||||     ||||||| |||||   ||| | || | | ||  ||  ||||| | |  |  | |  | || | || |||||||||| ||
CTGACAATTCTCTGGATTATGCGGCAAATTTCTCACACATGCTTGGTTTTGATGACCCTAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACACgtaattttgcatccatccctgtttctatttttgttatgtctcggaagtacttgttgttttcccctcatactgtgacttgtgttcttctag

upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 12
lower sequence: AT3G60100.1 (Arabidopsis thaliana), 5'ss of exon 11
CTGATAATGCACTGGATTATGCAGCAAATTTTTCACACATGCTTGGGTTTGATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCACACgtaattcatt-ccatccttgttttagtttctatttatttctaaaagacttggtttgatttctttttcctttcacctgtgttcttccag-----------------------------------------------------------------------------
  ||| || |  |||||||||  |||||||||||||||||||| || ||||||  |||  | |||   ||| | ||| | || ||| | || ||||||| || | || |     || | |||| |   | | |   |   || || || |    | |  | || ||   |  |    || ||||||                                                                               
TAGATGATTCTTTGGATTATGGTGCAAATTTTTCACACATGCTGGGATTTGATAGTCCTCAGATGAAAGAGCTCATGAGGCTTTATGTCACTATCCACAGgttagtcctggttctcttcgtttcaacatgtctcattaattagaatacataagctaaagttttcttgtatataatgatgatcttcctttattttaccaactcttaccaaatttctatagcatgatcaaggtttttttttcccttgtctactggtttctgttttag

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|58695418|gb|CK084105.1|CK084105
EST:     GATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCACAC                         TGATCATGAAGGTGGAAACGTCAGTGCTCATACTGGACATCTG
genomic: GATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCACACgtaattcatt ... gttcttccagTGATCATGAAGGTGGAAACGTCAGTGCTCATACTGGACATCTG
EST: gi|218505577|gb|FG949556.1|FG949556
EST:     GATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCACAC                         TGATCATGAAGGTGGAAACGTCAGTGCTCATACTGGACATCTG
genomic: GATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCACACgtaattcatt ... gttcttccagTGATCATGAAGGTGGAAACGTCAGTGCTCATACTGGACATCTG
EST: gi|33794400|gb|CF323084.1|CF323084
EST:     GATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCACAC                         TGATCATGAAGGTGGAAACGTCAGTGCTCATACTGGACATCTG
genomic: GATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCACACgtaattcatt ... gttcttccagTGATCATGAAGGTGGAAACGTCAGTGCTCATACTGGACATCTG
EST: gi|14571277|gb|BI118645.1|BI118645
EST:     GATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCGCAC                         TGATCATGAAGGTGGGAAACGTCAGTGCTCATACTGGACATCTG
genomic: GATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCACACgtaattcatt ... gttcttccagTGATCATGAAGGTGG-AAACGTCAGTGCTCATACTGGACATCTG
EST: gi|87012999|gb|CI297226.1|CI297226
EST:     GATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCACAC                         TGATCATGAAGGTGGAAACGTCAGTGCTCATACTGGACATCTG
genomic: GATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCACACgtaattcatt ... gttcttccagTGATCATGAAGGTGGAAACGTCAGTGCTCATACTGGACATCTG
EST: gi|58668188|gb|CK056874.1|CK056874
EST:     GATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCACAC                         TGATCATGAAGGTGGAAACGTCAGTGCTCATACTGGACATCTG
genomic: GATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCACACgtaattcatt ... gttcttccagTGATCATGAAGGTGGAAACGTCAGTGCTCATACTGGACATCTG
EST: gi|38481573|gb|CF965662.1|CF965662
EST:     GATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCACAC                         TGATCATGAAGGTGGAAACGTCAGTGCTCATACTGGACATCTG
genomic: GATGATCCCAAAATGCTTGAGTTGATGCGACTATATATAACAATCCACACgtaattcatt ... gttcttccagTGATCATGAAGGTGGAAACGTCAGTGCTCATACTGGACATCTG