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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTTCTGAGGACCTGGGCGCTGCCCCAATCTGGGTGTTTAACAATGgtaataattgccatattttttatatctttatcgccacagctgacctccttaattgctactaaactcttttatatatcag

Basic information

species Oryza sativa
transcript LOC_Os12g03470.5
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G006130_T01 (Zea mays), 5'ss of exon 9
CTTTCTGAGGACCTGGGCGCTGCCCCAATCTGGGTGTTTAACAATGgtaataattgccatattttttatatctttatcgccacagctgacctccttaattgctactaaa-ctcttttatatatcag----------------------
||| | ||||||||||| ||||||||||||||||| || ||||||||||||  ||  || || | ||| ||||||     ||   | |  || || || || |   |   | || |||||  ||||                      
CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATGgtaattgttttcagatctgttaaatcttt--tatcaacacggggcttctaaactgatggaatttccctcttataactcaggaataagccacaatgatgaagt

upper sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G006130_T02 (Zea mays), 5'ss of exon 9
CTTTCTGAGGACCTGGGCGCTGCCCCAATCTGGGTGTTTAACAATGgtaataattgccatattttttatatctttatcgccacagctgacctccttaattgctactaaa-ctcttttatatatcag
||| | ||||||||||| ||||||||||| ||||| || ||||||||||||  ||  || |||| ||| ||||||     ||   | |  || || || || |   |   |||| |||||  ||||
CTTGCGGAGGACCTGGGTGCTGCCCCAATATGGGTATTCAACAATGgtaattgttttcagatttgttaaatcttt--tatcaacacggggcttctaaactgatggaatttctctcttataactcag

upper sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G393002_T01 (Zea mays), 5'ss of exon 18
CTTTCTGAGGACCTGGGCGCTGCCCCAATCTGGGTGTTTAACAATGgtaataattgccatattttttatatctttatcgccacagctgacctcc-ttaattgctactaaactc--ttttatatatcag
|||||||||||| | || ||||||||||||||||| || ||||||||||||| ||   |  ||| ||| |||||   | |     ||    |    ||  || | | |   ||    | | |  ||||
CTTTCTGAGGACATAGGTGCTGCCCCAATCTGGGTATTCAACAATGgtaatactttttaggtttgttagatcttagacactgttactcttttaagctagctgatgcaatgttcaacctcaaaactcag

upper sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G006130_T06 (Zea mays), 5'ss of exon 9
CTTTCTGAGGACCTGGGCGCTGCCCCAATCTGGGTGTTTAACAATGgtaataattgccatattttttatatctttatcgccacagctgacctccttaattgctactaaa-ctcttttatatatcag
||| | ||||||||||| ||||||||||||||||| || ||||||||||||  ||  || || | ||| ||||||     ||   | |  || || || || |   |   | || |||||  ||||
CTTGCGGAGGACCTGGGTGCTGCCCCAATCTGGGTATTCAACAATGgtaattgttttcagatctgttaaatcttt--tatcaacacggggcttctaaactgatggaatttccctcttataactcag

upper sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 9
lower sequence: AT5G26120.1 (Arabidopsis thaliana), 5'ss of exon 9
CTTTCTGAGGACCTGGGCGCTGCCCCAATCTGGGTGTTTAACAATGgtaataatt--gccatattttttatatctttatcgccacagctgacctccttaattgctactaaactcttttatatatcag
||| | || ||||| || ||  ||||||| |||||||||||||||||||||  ||  ||  ||| | | |   ||||   ||   |  |       ||||   ||     ||| ||| |        
CTTGCAGAAGACCTTGGTGCATCCCCAATATGGGTGTTTAACAATGgtaattcttaagctctatatctcaagacttt---gctttatttacatgtattaacctctgagtgactgtttcag-------

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|29667817|gb|CB664092.1|CB664092
EST:     CTTTCTGAGGACCTGGGCGCTGCCCCAATCTGGGTGTTTAACAATG                         GAATCAGCCATAATGATGAAGTTGATACTGCTGCAATTGCTCCTTTTGTAA
genomic: CTTTCTGAGGACCTGGGCGCTGCCCCAATCTGGGTGTTTAACAATGgtaataattg ... tatatatcagGAATCAGCCATAATGATGAAGTTGATACTGCTGCAATTGCTCCTTTTGTAA
EST: gi|55410431|gb|CV722807.1|CV722807
EST:     CTTTCTGAGGACCTGGGCGCTGCCCCAATCTGGGTGTTTAACAATG                         GAATCAGCCATAATGATGAAGTTGATACTGCTGCAATTG
genomic: CTTTCTGAGGACCTGGGCGCTGCCCCAATCTGGGTGTTTAACAATGgtaataattg ... tatatatcagGAATCAGCCATAATGATGAAGTTGATACTGCTGCAATTG
EST: gi|29630007|gb|CB635016.1|CB635016
EST:     CTTTCTGAGGACCTGGGCGCTGCCCCAATTTGGGTGTTTAACAATG                         GAATCAGCCATAATGATGAAGTTGATACTGCTGCAATTGCTCCTTTTGTAA
genomic: CTTTCTGAGGACCTGGGCGCTGCCCCAATCTGGGTGTTTAACAATGgtaataattg ... tatatatcagGAATCAGCCATAATGATGAAGTTGATACTGCTGCAATTGCTCCTTTTGTAA