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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCCTTGGAACACCTACAAGGGAGGAAATTAAATGCATGAATCCAAACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtctatctatttctgttgttatactttcagcaatcgtccagtatcaggtgattaaccatatatgtaaaatatttag

Basic information

species Oryza sativa
transcript LOC_Os01g14860.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g14860.3 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM5G835235_T03 (Zea mays), 5'ss of exon 9
GTCCTTGGAACACCTACAAGGGAGGAAATTAAATGCATGAATCCAAACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtctatctatttctgttgttatactttcagcaatcgtccagtatcaggtgattaaccatatatgtaaaatatttag-------
|||||||| || || |||||||| ||||||||||||||||| || || || || ||||| ||||| ||||| || ||||| |||||||||||||||||| ||  | | ||||  | | || | ||  | | |  || |      || | | | | ||||    | | |  |   ||||        
GTCCTTGGTACTCCAACAAGGGAAGAAATTAAATGCATGAACCCGAATTACACAGAGTTTAAGTTCCCACAAATCAAAGCTCACCCATGGCACAAGgtgtaat-tttttctacattttttataatgttctaaaaaaactgttgctaccggtttactaactgcctttttggatattttatctttcag

upper sequence: LOC_Os01g14860.3 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G024151_T01 (Zea mays), 5'ss of exon 9
GTCCTTGGAACACCTACAAGGGAGGAAATTAAATGCATGAATCCAAACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgca-aagtctatctat-ttctgttgttatactttcagcaatcgtccagtatcaggtgattaaccatatatgtaaaatatttag--------
||||| || || || |||||||| ||||||||||||||||| ||||| || || ||||| ||||| ||||| || |||||||||||||||||||||||||  || ||| ||||  || ||||   ||||| | || || |    | | |   || | |||   ||  | |   | ||||          
GTCCTCGGTACGCCAACAAGGGAAGAAATTAAATGCATGAACCCAAATTACACAGAGTTTAAGTTCCCACAAATCAAAGCACACCCATGGCACAAGgtgctcaaatctttctacattttgttacaatactctaagaaaactgttactgttgtgttactaatt-tactttttgtacattttatctttcag

upper sequence: LOC_Os01g14860.3 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G129482_T01 (Zea mays), 5'ss of exon 4
GTCCTTGGAACACCTACAAGGGAGGAAATTAAATGCATGAATCCAAACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtctatctatttctgttgttatactttcagcaatcgtccagtatcaggtgattaaccatatatgtaaaatatttag-------
|||||||| || || |||||||| ||||||||||||||||| || || |  || ||||| ||||| ||||| || |||||||||||||||||||||||| ||  | | ||||  | | || | ||  | | |  || |      ||   | | | |||     | | |  |   ||||        
GTCCTTGGTACTCCAACAAGGGAAGAAATTAAATGCATGAACCCGAATTGCACAGAGTTTAAGTTCCCACAAATCAAAGCACACCCATGGCACAAGgtgtaat-tttttctacattttttataatgttctaaaaaaactgttgctactggtttactaattgcctttttggatattttatctttcag

upper sequence: LOC_Os01g14860.3 (Oryza sativa), 5'ss of exon 9
lower sequence: PP1S60_85V6.1 (Physcomitrella patens), 5'ss of exon 9
GTCCTTGGAACACCTACAAGGGAGGAAATTAAATGCATGAATCCAAACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtctatctatttctgttgttat-actttcagcaatcgtccagtatcaggtgattaaccatatatgtaaaatatttag----------------
||  | |||||||| ||  | ||||| || || ||||||||||| ||||| || |||||||||||||| || || || || ||||| |||||||| ||     |||| | |   |    ||||   |  ||  ||  | ||   |||       | |    || || |       ||| |                
GTGTTGGGAACACCGACTCGTGAGGAGATAAAGTGCATGAATCCGAACTACACGGAGTTCAAGTTTCCGCAAATCAAGGCTCACCCGTGGCACAAAgtatgtggtctttgtgaatgcactgtttccatcttgggctttggtagtgtagtccagaagtggagatgtacgaccgtgttttcgtgtgagcggtgggttt

upper sequence: LOC_Os01g14860.3 (Oryza sativa), 5'ss of exon 9
lower sequence: PP1S60_100V6.1 (Physcomitrella patens), 5'ss of exon 9
GTCCTTGGAACACCTACAAGGGAGGAAATTAAATGCATGAATCCAAACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtctatctatttctgttgttat-actttcagcaatcgtccagtatcaggtgattaaccatatatgtaaaatatttag----------------
||  | || ||||| ||  | ||||| || || ||||||||||| ||||| || |||||||||||||| || || || || |||||||||||||| ||     |||| | |   |    |||| | |  ||  ||  | ||   |||       | |    || || |       ||| |                
GTGTTGGGGACACCGACTCGTGAGGAGATCAAGTGCATGAATCCGAACTACACGGAGTTCAAGTTTCCGCAAATCAAGGCTCACCCATGGCACAAAgtatgtggtctgtgtgaatgcactgttttcatcttgggctttggtagtgtagtccagaagtggagatgtacgaccgtgttttcgtgtgtgagcggtgggt

upper sequence: LOC_Os01g14860.3 (Oryza sativa), 5'ss of exon 9
lower sequence: PP1S74_168V6.1 (Physcomitrella patens), 5'ss of exon 8
GTCCTTGGAACACCTACAAGGGAGGAAATTAAATGCATGAATCCAAACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaa--agtctatctatt-----tctgttgttatactttcagcaatcgtccagtatcaggtgatt----aaccatatatgtaaa-atatttag-------
||  | || ||||| ||| | ||||| || || ||||||||||| ||||| || |||||||||||||| || ||||| || || || ||||||||||| |     |||| | | ||     |||| | |  | ||||  | |   || | ||| ||| |||||    | |  ||  ||||   ||| | |        
GTGTTGGGGACACCCACACGCGAGGAGATAAAGTGCATGAATCCGAACTACACGGAGTTCAAGTTTCCTCAAATTAAGGCTCATCCTTGGCACAAGgtacggctggtctgtgtgttagtggtctggtatggtgcttt--ggagatgtactgtaacagttgattggaaagcgttacctgtattcataataacggtgatt

upper sequence: LOC_Os01g14860.3 (Oryza sativa), 5'ss of exon 9
lower sequence: PP1S52_55V6.1 (Physcomitrella patens), 5'ss of exon 9
GTCCTTGGAACACCTACAAGGGAGGAAATTAAATGCATGAATCCAAACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtctatctatttctgtt-gttatactt--tcagcaatcgtccagtatca-ggtgattaaccatatatgtaaaatatttag---------------------------------------------------------------------------------------------------------
||  | || ||||||||| | ||||| || || ||||||||||| ||||| || |||||||||||||| || ||||| || ||||| |||||||||||     || | | | |||  ||| | |||  ||  |   | ||  |  | | | |  |  |||| || | |     | ||   |                                                                                                           
GTGTTAGGGACACCTACACGTGAGGAGATAAAGTGCATGAATCCGAACTACACGGAGTTCAAGTTTCCTCAAATTAAGGCTCACCCGTGGCACAAGgtat--ggtttgtatgtttgggttagctatttttagtggtctattatataatttgataggaattatccgtgtcctcgatattggtgattttgaatttggttggttggacgctgctactcgttgtgattgggagaatggagcgtgttgcattgaccttagcaacgtgcgaattgattggttctgtggtggcag

upper sequence: LOC_Os01g14860.3 (Oryza sativa), 5'ss of exon 9
lower sequence: PP1S306_62V6.1 (Physcomitrella patens), 5'ss of exon 8
GTCCTTGGAACACCTACAAGGGAGGAAATTAAATGCATGAATCCAAACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtctat-ctatttctgt--tgttatact------ttcagcaatcgtccagtatcaggtg---attaaccatatatgtaaa-----atatttag--------------------------------------------------------------------------------
||  | || ||||| ||  | ||||| || || ||||||||||| ||||| || ||||||||||||||||| || || || ||||| |||||||| ||      | | | | | | || |  ||| || ||      | | |   | || | |||   | ||    | | || |    ||  |     ||  ||||                                                                                
GTTTTGGGGACACCGACTCGTGAGGAGATCAAGTGCATGAATCCGAACTACACAGAGTTCAAGTTTCCACAAATCAAGGCGCACCCGTGGCACAAAgtatgttttttgtgcgaatgctatgatgtcatcctgggtgttgcggttgtagtgcggtagtggatgtgggtcagcctttctcgtgtagcggcattgttagttgcgtgcgtcgtggtttgttggatgttgggttttgacgacggtaaccggcgtttggtatggccgatgtgggaattgcag

upper sequence: LOC_Os01g14860.3 (Oryza sativa), 5'ss of exon 9
lower sequence: EFJ07923 (Selaginella moellendorffii), 5'ss of exon 10
GTCCTTGGAACACCTACAAGGGAGGAAATTAAATGCATGAATCCAAACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgt----gcaa--agtctatctatttctgttgttatactttcagcaatcgtccagtatcaggtgattaaccatatatgtaaaatatttag
||| | || || |||||  |||||||||| |||||||||||||||||||| || ||||| ||||| || ||||||||||| || || |||||||||||    ||||  |  |  | ||| ||| |   | |   |   |   | |  |  |  |||                             
GTCTTAGGTACTCCTACTCGGGAGGAAATCAAATGCATGAATCCAAACTACACGGAGTTTAAGTTCCCTCAGATTAAAGCGCATCCCTGGCACAAGgtaagagcaatcatccggtatatctctctctctgtctctcttgatgtggctcgttgacag-----------------------------

upper sequence: LOC_Os01g14860.3 (Oryza sativa), 5'ss of exon 9
lower sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 10
GTCCTTGGAACACCTACAAGGGAGGAAATTAAATGCATGAATCCAAACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgt----gcaa--agtctatctatttctgttgttatactttcagcaatcgtccagtatcaggtgattaaccatatatgtaaaatatttag
||| | || || |||||  | |||||||| |||||||||||||||||||| || ||||| ||||| || ||||||||||| || || |||||||||||    ||||  |  |  | ||| ||| |   | |   |   |   | |  |  |  |||                             
GTCTTAGGTACTCCTACTCGCGAGGAAATCAAATGCATGAATCCAAACTACACGGAGTTTAAGTTCCCTCAGATTAAAGCGCATCCCTGGCACAAGgtaagagcaatcatccggtatatctctctctctgtctctcttgatgtggctcgttgacag-----------------------------

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|33381492|gb|CF196835.1|CF196835
EST:     ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAG                         GTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
genomic: ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
EST: gi|58686155|gb|CK074842.1|CK074842
EST:     ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAG                         GTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
genomic: ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
EST: gi|58606572|gb|CK034605.1|CK034605
EST:     ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAG                         GTATTCCATAAAAGGTTGCCTCCAGAAGCTGTAGATCTTGTCTCTAGGCTG
genomic: ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
EST: gi|58687307|gb|CK075994.1|CK075994
EST:     ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAG                         GTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
genomic: ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
EST: gi|58679602|gb|CK068289.1|CK068289
EST:     ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAG                         GTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
genomic: ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
EST: gi|58590369|gb|CF988677.1|CF988677
EST:     ACTATGCCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAG                         GTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
genomic: ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
EST: gi|218498670|gb|FG952679.1|FG952679
EST:     ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAG                         GTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
genomic: ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
EST: gi|58601780|gb|CK012308.1|CK012308
EST:     GTTCAAGTTTCCACAGATTAAAGCACACCCAGTGGCACAAG                         GTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCT
genomic: GTTCAAGTTTCCACAGATTAAAGCACACCCA-TGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCT
EST: gi|29618977|gb|CB623989.1|CB623989
EST:     ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAG                         GTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
genomic: ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
EST: gi|58602991|gb|CK013519.1|CK013519
EST:     ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAG                         GTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
genomic: ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
EST: gi|58672614|gb|CK061300.1|CK061300
EST:     ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAG                         GTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
genomic: ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
EST: gi|38469291|gb|CF953422.1|CF953422
EST:     ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAG                         GTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
genomic: ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
EST: gi|29677190|gb|CB673465.1|CB673465
EST:     ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAG                         GTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCT
genomic: ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCT
EST: gi|86593838|gb|CI260067.1|CI260067
EST:     TACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAG                         GTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
genomic: TACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
EST: gi|29677191|gb|CB673466.1|CB673466
EST:     ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAG                         GTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
genomic: ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
EST: gi|218501528|gb|FG953636.1|FG953636
EST:     ACTAT-CCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAG                         GTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
genomic: ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
EST: gi|58682391|gb|CK071078.1|CK071078
EST:     ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAG                         GTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
genomic: ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
EST: gi|66918477|gb|CX105325.1|CX105325
EST:     ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAG                         GTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
genomic: ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
EST: gi|87007029|gb|CI275337.1|CI275337
EST:     AAAGCACACCCATGGCACAAG                         GTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
genomic: AAAGCACACCCATGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCTG
EST: gi|2317500|gb|C22554.1|C22554
EST:     ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAG                         GTATTCCATAAAAGGTTGGCCTCCAGAAGCTGTTGATCTTGTCTCTAGGCT
genomic: ACTATACCGAGTTCAAGTTTCCACAGATTAAAGCACACCCATGGCACAAGgtgcaaagtc ... aaatatttagGTATTCCATAAAAGGTTG-CCTCCAGAAGCTGTTGATCTTGTCTCTAGGCT