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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTGTTGAAATCATGGCAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAGgtggagtggcactacatgttcaactttaacattgtttataacagtggtattcttacacactgtcttctgcag

Basic information

species Oryza sativa
transcript LOC_Os02g19510.2
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g19510.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G006507_T03 (Zea mays), 5'ss of exon 11
ATTTGTTGAAATCATGGCAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAGgtggagtggcactacatgttcaactttaacattgtttataacagtggtattcttacacactgtcttctgcag
|||||||||||| |||||||| |||||||||||  |||||||||||||||| |||||||||||||||||| |    | | | ||| | |    | |  |||| || ||  || |||| ||||| |||||  |  |||||
ATTTGTTGAAATTATGGCAACGGTGTTCTCTAGAAATGCATGGCGCTGTGTATGGCATATGATTCAGgtgaa----cgcaatatgctaatgcattagtttgtcta-aagtgtagtatgcttacccactgcttcatgcag

upper sequence: LOC_Os02g19510.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G119725_T03 (Zea mays), 5'ss of exon 10
ATTTGTTGAAATCATGGCAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAGgtggagtggcactacatgttcaactttaacattgtttataacagtggtattcttacacactgtcttctgcag
||||||||| || |||||||| |||||||| ||  |||||||||||||||| ||||||||||||||||||  ||  ||   ||||     | |||   |||| |  |   |  |||| ||||  ||||    | |||||
ATTTGTTGAGATTATGGCAACAGTGTTCTCCAGAAATGCATGGCGCTGTGTATGGCATATGATTCAGgtgaggtaacatggcatgcaagtcattagt-ttgtctgaagtgg-agtatgcttatgcacttctatatgcag

upper sequence: LOC_Os02g19510.1 (Oryza sativa), 5'ss of exon 11
lower sequence: AT1G08040.2 (Arabidopsis thaliana), 5'ss of exon 11
ATTTGTTGAAATCATGGCAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAGgtg---gagtggcactac----------atgttcaactttaacattgtttataacagtggtattctta----cacactgtcttctgcag--------------------------------------------------------------------------------
 |||||||| || |||||| | || || ||||| || |||||||| ||||| |||||||||||||||||    |  |  |  ||           | | ||    || ||||     | |   |||| |||  |      ||  ||  |||||                                                                                   
GTTTGTTGAGATTATGGCACCTGTATTTTCTAGAGAAGCATGGCGATGTGTATGGCATATGATTCAGgtttttgtttaactttattcacctttttacgatcggtattcacatgacccaaatttgtggcattgatgaatctacgttggtttctgattaagctatcaaaaggagtttgtctagtcttccagaccatcacttggtagcctaaaaacaatcttgtttgtttctggtgcag

upper sequence: LOC_Os02g19510.1 (Oryza sativa), 5'ss of exon 11
lower sequence: Vv06s0004g02700.t01 (Vitis vinifera), 5'ss of exon 11
ATTTGTTGAAATCATGGCAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAGgtggagtg-gcactacatgttcaactttaacattgtttataaca---gtggtattcttacaca-ctgtcttctgcag-----------------------
|||||| ||||| |||||  | || |||||| |||| || ||||| ||||| |||||||||||||||||    |      |  | | | |  ||      |    ||  ||   ||   |  | | |||| || |  ||| ||                        
ATTTGTGGAAATTATGGCCCCTGTCTTCTCTCGGGAAGCTTGGCGTTGTGTGTGGCATATGATTCAGgtatcctttatcttttaggattatattgctttctacacatggcacatgttacaagcatgcacatcttttctcttcaagttattcttctgttatctcatag

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|29673249|gb|CB669524.1|CB669524
EST:     CAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAG                         AATGACTTGGTCCATGGATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTG
genomic: CAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAGgtggagtggc ... tcttctgcagAATGACTTGGTCCATGGATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTG
EST: gi|29616239|gb|CB621251.1|CB621251
EST:     CAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAG                         AATGACTTGGTCCATGGATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTG
genomic: CAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAGgtggagtggc ... tcttctgcagAATGACTTGGTCCATGGATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTG
EST: gi|29641724|gb|CB646731.1|CB646731
EST:     CAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAG                         AATGACTTGGTCCATGGATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTG
genomic: CAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAGgtggagtggc ... tcttctgcagAATGACTTGGTCCATGGATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTG
EST: gi|29641418|gb|CB646425.1|CB646425
EST:     CAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAG                         AATGACTTGGTCCATGGATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTG
genomic: CAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAGgtggagtggc ... tcttctgcagAATGACTTGGTCCATGGATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTG
EST: gi|58596057|gb|CK006585.1|CK006585
EST:     CAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAG                         AATGACTTGGTCCATGGATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTG
genomic: CAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAGgtggagtggc ... tcttctgcagAATGACTTGGTCCATGGATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTG
EST: gi|29676039|gb|CB672314.1|CB672314
EST:     CAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAG                         AATGACTTGGTCCATGGATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTG
genomic: CAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAGgtggagtggc ... tcttctgcagAATGACTTGGTCCATGGATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTG
EST: gi|38475807|gb|CF959940.1|CF959940
EST:     CAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAG                         AATGACTTGGTCCATGGATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTG
genomic: CAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAGgtggagtggc ... tcttctgcagAATGACTTGGTCCATGGATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTG
EST: gi|33795503|gb|CF323621.1|CF323621
EST:     CAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAG                         AATGACTTGGTCCATGGATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTG
genomic: CAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAGgtggagtggc ... tcttctgcagAATGACTTGGTCCATGGATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTG
EST: gi|27577797|gb|CB000492.1|CB000492
EST:     CCTTCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAG                         AATGACTTGGTCCATGGATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTG
genomic: CAACCGTGTTCTCTAGGGATGCATGGCGCTGTGTCTGGCATATGATTCAGgtggagtggc ... tcttctgcagAATGACTTGGTCCATGGATGGGGTCTTGATTTCGCTCTAAGGAAATGTGTG