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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGCCAAATGTTAACACATATAGTGCACTGATTGATGGCTGTGCAAAAGCTGGTCAAGTAGCAAAAGCATTTGGTGCTTATGGTATCATGAGTTCAAAGgtgaagtggtagatattttttctttttatattacatgtcttccattcacctgtgctgcaaatgctactggtgaatcacttctatgcgctttccatgtttgttgaacttactgggccatacttgcagtag

Basic information

species Oryza sativa
transcript LOC_Os10g10170.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g10170.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA09G35270.1 (Glycine max), 5'ss of exon 6
AGAGCCAAATGTTAACACATATAGTGCACTGATTGATGGCTGTGCAAAAGCTGGTCAAGTAGCAAAAGCATTTGGTGCTTATGGTATCATGAGTTCAAAGgtgaagtggtagatattttttctttttatattacatgtcttccattcacctgtgctgcaaatgctactggtgaatcacttctatgcgct--ttccatgtttgttgaacttactgggccatacttgcagtag
 || || |||||| | || ||| | ||||| |||||||| ||||| | |||||| ||||| || |||||||||||||||||||| || ||||| ||||||||  | |  | |  |   | | ||| || |  ||     |  || |    || | || |  | || |  ||   | | || ||   |||  |   ||||||  || | |                      
GGAACCTAATGTTCATACCTATGGAGCACTTATTGATGGTTGTGCTAGAGCTGGGCAAGTGGCTAAAGCATTTGGTGCTTATGGAATTATGAGGTCAAAGgtacaattattg-caaaatgtatttctaaagaactatattcacagtggtatgagttg-agttcctcccagttttttaattgtacatgctgatgtgatgtttaatgcagtag--------------------

upper sequence: LOC_Os10g10170.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA12G03760.1 (Glycine max), 5'ss of exon 7
AGAGCCAAATGTTAACACATATAGTGCACTGATTGATGGCTGTGCAAAAGCTGGTCAAGTAGCAAAAGCATTTGGTGCTTATGGTATCATGAGTTCAAAGgtgaagtggtagatattttttctttttatattacatgtcttccattcacctgtgctgcaaatgctactggtgaatcacttctatgcgctttccatgtttgttgaacttactgggccatact-tgcagtag
 || || || ||| | || ||| | ||||| |||| ||| ||||| | |||||| ||||| || |||||||||||||||||||| || ||||| ||||||||  | |  | |  |  || | ||| || |  ||      |  ||||||  ||| |   | |        ||| |  || | |   | |||   |  ||||  |   |  || |   |    ||||||||
GGAACCTAACGTTCATACCTATGGAGCACTTATTGGTGGTTGTGCTAGAGCTGGGCAAGTTGCTAAAGCATTTGGTGCTTATGGAATTATGAGGTCAAAGgtacaattattg-caacttgtatttctaaagaac------tatattcaca-gtggtatgagt--------tgagttcctccca---gttttttttaattgtacatgctgatgtgatgtttaatgcagtag

upper sequence: LOC_Os10g10170.2 (Oryza sativa), 5'ss of exon 5
lower sequence: AT4G34830.1 (Arabidopsis thaliana), 5'ss of exon 7
AGAGCCAAATGTTAACACATATAGTGCACTGATTGATGGCTGTGCAAAAGCTGGTCAAGTAGCAAAAGCATTTGGTGCTTATGGTATCATGAGTTCAAAGgtgaa-gtggtagatattttt-tctttttatattacatgtcttccattca--------cctgtgctgcaaatgctactggtgaatcacttct--atgcgctttccatgtttgtt--------gaacttactgggccatacttgcagtag--------------------
 ||  | ||| || |||||| | ||||||| |||||||||||||| | |||||| |||||||| || ||||||||||| ||||| ||  | || || ||||| |   ||  | |  |||   |    |  ||| |  ||| |    ||||        ||| |      |  ||||| | |   |   || |  || |   ||  |||||  ||        | | |  |    | ||  || || |                      
GGAAGCCAATCTTCACACATTTGGTGCACTTATTGATGGCTGTGCTAGAGCTGGACAAGTAGCTAAGGCATTTGGTGCGTATGGAATTTTAAGGTCTAAGgtaagcatgccacaagtttggatgccctcctatcatgtgtttagatttcaaaaaataccctatttcttcatggctacagttttttttttttttaattctgcttatatgttcatttctgctttggaatctcaaatcaattattacattgatgacatgttcgatgcagtag

upper sequence: LOC_Os10g10170.2 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv03s0038g01320.t01 (Vitis vinifera), 5'ss of exon 7
AGAGCCAAATGTTAACACATATAGTGCACTGATTGATGGCTGTGCAAAAGCTGGTCAAGTAGCAAAAGCATTTGGTGCTTATGGTATCATGAGTTCAAAGgtga------agtggtagatatttt---ttctttttatattacatgtcttccattcacctgtgctgcaaatgctactggtgaatcacttctatgcgctttccatgtttgttgaacttactgggccatacttgcagtag----------------------------------------
 || ||||||||| | |||||| ||||||| |||||||| ||||  | |||||| ||||| || || ||||||||||||||||| || ||||| || |||||        |||  ||||| || |    || |||  ||  || | ||||       ||  || |   | ||    ||||   |    |  | |  | | |||  ||  |     || ||   |   | ||  | ||                                         
GGAACCAAATGTTCATACATATGGTGCACTTATTGATGGTTGTGGTAGAGCTGGACAAGTTGCTAAGGCATTTGGTGCTTATGGAATAATGAGGTCCAAGgtatgattttagtcatagattttctaatctcctttgttagcacttttctttttcgttccaatgatttca-tgtctatggtagtttg--tacaagaacatcccagcttgttcatttttgctt--ctgcattttgaatattaaataagtttcaaactgataagatgttgatatgcagtag

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|29671044|gb|CB667319.1|CB667319
EST:     CTGGTCAAGTAGCAAAAGCATTTGGTGCTTATGGTATCATGAGTTCAAAG                         T
genomic: CTGGTCAAGTAGCAAAAGCATTTGGTGCTTATGGTATCATGAGTTCAAAGgtgaagtggt ... cttgcagtag-
EST: gi|29671044|gb|CB667319.1|CB667319
EST:     CTGGTCAAGTAGCAAAAGCATTTGGTGCTTATGGTATCATGAGTTCAAAG                         T
genomic: CTGGTCAAGTAGCAAAAGCATTTGGTGCTTATGGTATCATGAGTTCAAAGgtgaagtggt ... cttgcagtag-
EST: gi|29614515|gb|CB619528.1|CB619528
EST:     CTGGTCAAGTAGCAAAAGCATTTGGTGCTTATGGTATCATGAGTTCAAAG                         AAGGTGAAGCCAGATCGAGTTGTCTTTAATGCTTTGATCAGTGCATGCGGT
genomic: CTGGTCAAGTAGCAAAAGCATTTGGTGCTTATGGTATCATGAGTTCAAAGgtgaagtggt ... cttgcagtagAAGGTGAAGCCAGATCGAGTTGTCTTTAATGCTTTGATCAGTGCATGCGGT