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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTTTTTCTGAAGGAGAAATAAGAAGTTTTATGTCTCAGATGCTGCAAGGGCTCGCACACATGCATAAAAACGGTTATTTCCATCGAGACCTGAAACCTGgtatgttttggtactttgtattgtattaattgaaatggttttcgctctttgaatgtcttataaacaagttttgttctgtttctgaag

Basic information

species Arabidopsis thaliana
transcript AT4G13020.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G13020.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os03g63020.1 (Oryza sativa), 5'ss of exon 6
CCTTTTTCTGAAGGAGAAATAAGAAGTTTTATGTCTCAGATGCTGCAAGGGCTCGCACACATGCATAAAAACGGTTATTTCCATCGAGACCTGAAACCTGgtatgttttggtactttgtattgtattaattg-aaatggttttcgctctttgaatgtcttataaacaagttttgttctgtttctgaag
 |||| || ||||  || ||| | |  ||||||   ||||| |||||||| || ||| | |||||||| ||||||||||||||||| |||||||||||||||||   ||   ||| | |  |||   | ||  |    || |     |  |  | || | || | |    | | ||   | | |    
GCTTTCTCAGAAGAGGAGATACGGAACTTTATGGTGCAGATACTGCAAGGTCTTGCATATATGCATAACAACGGTTATTTCCATCGTGACCTGAAACCTGgtatacctttcgactatattctgttgaagttataggctgtctatataccctagaagt-taattagccttctctctttcctctttag--

upper sequence: AT4G13020.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv07s0151g00350.t01 (Vitis vinifera), 5'ss of exon 6
CCTTTTTCTGAAGGAGAAATAAGAAGTTTTATGTCTCAGATGCTGCAAGGGCTCGCACACATGCATAAAAACGGTTATTTCCATCGAGACCTGAAACCTGgtatgttttggtactttgtat-----tgtattaattgaa---atggttttcgctctt-tgaatgtcttataaacaagttttgtt--ctgtttctgaag----------------------------------
||  |||| || | ||| ||| | || |||||||||||  |||||||||| || ||||||||||||||||| || ||||| ||||| ||| | ||||||||||||   | |   | |  |      || | |  |  |    ||| |||    | || |     ||||    |  | || |||   || | ||| |                                    
CCCCTTTCAGAGGAAGAGATACGGAGCTTTATGTCTCAAGTGCTGCAAGGACTTGCACACATGCATAAAAATGGATATTTTCATCGGGACTTAAAACCTGgtatgaagttgacttctacaaaattatgcacttgtgcagtctatgatttggaattttatttgcatcttcatgaagaattgtgtaggctttatctaatagtgtatattatcaaacaccatttctgtcttcaag
















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|124958306|gb|EL033059.1|EL033059
EST:     GCTCGCACACATGCATAAAAACGGTTATTTCCATCGAGACCTGAAACCTG                         AGAATTTGCTGGTGACCAACAATATCCTCGAAAATTG
genomic: GCTCGCACACATGCATAAAAACGGTTATTTCCATCGAGACCTGAAACCTGgtatgttttg ... gtttctgaagAGAATTTGCTGGTGACCAACAATATCCT-GAAAATTG
EST: gi|116427860|gb|EG470452.1|EG470452
EST:     GCTCGCACACATGCATAAAAACGGTTATTTCCATCGAGACCTGAAACCTG                         AGAATTTGCTGGTGACCAACAATATCCTGAAAATTGCTGACTTTGGGTTGG
genomic: GCTCGCACACATGCATAAAAACGGTTATTTCCATCGAGACCTGAAACCTGgtatgttttg ... gtttctgaagAGAATTTGCTGGTGACCAACAATATCCTGAAAATTGCTGACTTTGGGTTGG