Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACACGAATTGAAGAGCTTGCCACCAAGTATGGCTGCTCCCCTGCTCAACTTGCTCTCTCCTGGGTTCTTCATCAAGGGGATGATGTTGTTCCAATCCCTGgtaatgtgttaaacatatttagtacgctgtcagtgtcagaagtattttcctgtcttggatactccatactgtcaggcttaacatggtcttttacctgttc...

Basic information

species Oryza sativa
transcript LOC_Os10g28320.4
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g28320.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM5G813143_T02 (Zea mays), 5'ss of exon 6
ACACGAATTGAAGAGCTTGCCACCAAGTATGGCTGCTCCCCTGCTCAACTTGCTCTCTCCTGGGTTCTTCATCAAGGGGATGATGTTGTTCCAATCCCTGgtaatgtgttaaacatatttagtacgctgtcagtgtcagaagt-attttcctgtcttggatactccatactgtcaggcttaacatggtcttttacctgttc-
|||||| |||||  | |  |||  |||||||| ||| | ||||||||||| |||||||||||||||||||||||||| || ||||| || || ||||||||||||||  | |    || || |    ||| | |     |  | || ||  |||  |  |  || | ||    |||| | ||     ||  | | |    | 
ACACGACTTGAAATGTTGTCCAAGAAGTATGGGTGCACACCTGCTCAACTCGCTCTCTCCTGGGTTCTTCATCAAGGAGAAGATGTGGTCCCCATCCCTGgtaatgtcctgacatcatatattcatatgttaatactgaagatcatgtttatgttct--actctgcctatgagcagggtcaaacctttccatcaacaaacca

upper sequence: LOC_Os10g28320.2 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv14s0030g02050.t01 (Vitis vinifera), 5'ss of exon 6
ACACGAATTGAAGAGCTTGCCACCAAGTATGGCTGCTCCCCTGCTCAACTTGCTCTCTCCTGGGTTCTTCATCAAGGGGATGATGTTGTTCCAATCCCTGgtaatgtgttaaacatatttagtacgctgtcagtgtc---agaagtattttcctgtcttggatactccatactgtcaggcttaacatggtcttttacctgttc
||   ||| ||   | | ||    ||| | || ||| || |||| || ||||| ||  | |||||||||| ||||||||||||||||| ||| ||||||||| | |||  ||   | | |   |  |      |  |    || ||     |   || |  |||     | || |    | | |     | |  |        
ACTAAAATGGAGATGTTGGCTGAAAAGCACGGATGCACCGCTGCACAGCTTGCGCTAGCTTGGGTTCTTCGTCAAGGGGATGATGTTGCTCCTATCCCTGgtga-gtga-aattttttctgccatacaagttatacccttggaggttgggacaaatcctaaatat---gtgcttttgatccttattccatatgatgtag----

upper sequence: LOC_Os10g28320.2 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv14s0030g01980.t01 (Vitis vinifera), 5'ss of exon 6
ACACGAATTGAAGAGCTTGCCACCAAGTATGGCTGCTCCCCTGCTCAACTTGCTCTCTCCTGGGTTCTTCATCAAGGGGATGATGTTGTTCCAATCCCTGgtaa----tgtgttaaacatatttagtacgc-tgtcagtgtcagaagtattttcctgtcttggatactccatactgtcaggcttaacatggtcttttacctgttc
||   ||| ||   | | ||    ||| |  | ||| ||||||| || ||||| ||  | |||||||||||||||||||||||||| |  || ||||||||| |     |||||   | | |  |    || ||  |    ||    ||   ||   |||||    | | |||   |||  | || |    ||||||   |||  
ACTAAAATGGAGATGTTGGCTGAAAAGCACAGATGCACCCCTGCACAGCTTGCACTAGCTTGGGTTCTTCATCAAGGGGATGATGTGGCACCTATCCCTGgtgagtcacgtgttcttcctctcaacctagcatgcaaagaacatgcttaacatctgttcttgtcctcacaataacatcattcatatc----tcttttgattgtc-

upper sequence: LOC_Os10g28320.2 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv14s0030g02020.t01 (Vitis vinifera), 5'ss of exon 6
ACACGAATTGAAGAGCTTGCCACCAAGTATGGCTGCTCCCCTGCTCAACTTGCTCTCTCCTGGGTTCTTCATCAAGGGGATGATGTTGTTCCAATCCCTGgtaatgtgttaaacatatttagtacgctgtcagtgtcagaagtattttcctgtcttggatactccatactgtcaggcttaa--catggtcttttacctgttc-
||   ||| ||   | | ||    ||| |  | ||| ||||||| || ||||| ||  | |||||||||||||||||||||||||| |  || ||||||||| |   || |    |  ||  |        ||      ||| |  |   |  | |  || ||          |    | |  ||||    |||   |||   
ACTAAAATGGAGATGTTGGCTGAAAAGCACAGATGCACCCCTGCACAGCTTGCACTAGCTTGGGTTCTTCATCAAGGGGATGATGTGGCACCTATCCCTGgtga---gtcacgtgttcttcctctcaacctagcacacaaagaacatggttaacatctattcttgtcctcacaataactcattcatgtctcttttgatgtcgg

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|88510628|gb|CI438134.1|CI438134
EST:     GATGTTGTTCCAATCCCTG                         GCACAACAAAAGTGAAGAACCTTGATGATAACATTGGTGCTGTAAAGGTAA
genomic: GATGTTGTTCCAATCCCTGgtaatgtgtt ... ttgaatttagGCACAACAAAAGTGAAGAACCTTGATGATAACATTGGTGCTGTAAAGGTAA
EST: gi|29687720|gb|CB683995.1|CB683995
EST:     TGCTCTCTCCTGGGTTCTTCATCAAGGGGATGATGTTGTTCCAATCCCTG                         GCACAACAAAAGTGAAGAACCTTGATGATAACATTGGTGCTGTAAAGGTAA
genomic: TGCTCTCTCCTGGGTTCTTCATCAAGGGGATGATGTTGTTCCAATCCCTGgtaatgtgtt ... ttgaatttagGCACAACAAAAGTGAAGAACCTTGATGATAACATTGGTGCTGTAAAGGTAA
EST: gi|86425513|gb|CI070610.1|CI070610
EST:     TGCTCTCTCCTGGGTTCTTCATCAAGGGGATGATGTTGTTCCAATCCCTG                         GCACAACAAAAGTGAAGAACCTTGATGATAACATTGGTGCTGTAAAGGTAA
genomic: TGCTCTCTCCTGGGTTCTTCATCAAGGGGATGATGTTGTTCCAATCCCTGgtaatgtgtt ... ttgaatttagGCACAACAAAAGTGAAGAACCTTGATGATAACATTGGTGCTGTAAAGGTAA
EST: gi|86600347|gb|CI356104.1|CI356104
EST:     TCATCAAGGGGATGATGTTGTTCCAATCCCTG                         GCACAACAAAGGTGAAGAACCTTGATGATAACATTGGTGCTGTAAAGGTAA
genomic: TCATCAAGGGGATGATGTTGTTCCAATCCCTGgtaatgtgtt ... ttgaatttagGCACAACAAAAGTGAAGAACCTTGATGATAACATTGGTGCTGTAAAGGTAA
EST: gi|88256310|gb|CI358698.1|CI358698
EST:     CTGGGTTCTTCATCAAGGGGATGATGTTGTTCCAATCCCTG                         GCACAACAAAAGTGAAGAACCTTGATGATAACATTGGTGCTGTAAAGGTAA
genomic: CTGGGTTCTTCATCAAGGGGATGATGTTGTTCCAATCCCTGgtaatgtgtt ... ttgaatttagGCACAACAAAAGTGAAGAACCTTGATGATAACATTGGTGCTGTAAAGGTAA
EST: gi|88259768|gb|CI364061.1|CI364061
EST:     AAGGGGATGATGTTGTTCCAATCCCTG                         GCACAACAAAAGTGAAGAACCTTGATGATAACATTGGTGCTGTAAAGGTAA
genomic: AAGGGGATGATGTTGTTCCAATCCCTGgtaatgtgtt ... ttgaatttagGCACAACAAAAGTGAAGAACCTTGATGATAACATTGGTGCTGTAAAGGTAA