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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAAAGATTTGTATGGTCTTTGATATCTGCTGTTGGCATCTTTTGCCTTGGGTCTGGTGCTACCATAGTTAATGGAGTACAGAACTTGTGGACTTCTTCGgtaattttcggcatatcttgtgactttgacgttatctgctatttgatcttttggattattagatactctttgtacatttccttggttgttcatcaattttgactatctttctcag

Basic information

species Arabidopsis thaliana
transcript AT1G51610.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G51610.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os04g23180.1 (Oryza sativa), 5'ss of exon 5
AGAAAGATTTGTATGGTCTTTGATATCTGCTGTTGGCATCTTTTGCCTTGGGTCTGGTGCTACCATAGTTAATGGAGTACAGAACTTGTGGACTTCTTCGgta-attttcggcatatcttgtgactt-tgacgttatctgctatttgatcttttggattattagatactctttgt-acatttccttggttgttcatcaattttgactatctttctcag
|||||||||||||||||| ||||||||||| ||||| || |||||  | || || ||||||||||| ||  ||||||| || ||||| |||| |||    |||   |       |||| | ||| |    |    || |   |  ||  ||      |||||||| | ||||||| || |  |    ||||||      |      | | |||  |||
AGAAAGATTTGTATGGTCCTTGATATCTGCAGTTGGAATATTTTGTTTGGGTTCAGGTGCTACCATTGTGCATGGAGTTCAAAACTTATGGAATTCGCAAgtatgatgcaaatgtatcatttgattcaccaaaagattttacacatgcactcc-atcttattagaaaatctttgttacctaactacagttgttatatcgtgacacatttatttgacag

upper sequence: AT1G51610.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G065839_T01 (Zea mays), 5'ss of exon 5
AGAAAGATTTGTATGGTCTTTGATATCTGCTGTTGGCATCTTTTGCCTTGGGTCTGGTGCTACCATAGTTAATGGAGTACAGAACTTGTGGACTTCTTCGgta-attttcggcatatcttgtga----------ctttgacgttatctgctatttgatcttttggattattagatactctttgtacatttccttggttgttcatcaattttgactatctttctcag
 |||||||||||||||||| | |||||||| ||||| || |||||| | || || |||||||| || ||  ||||||| || || || |||| ||||   |||  |   |    | || | |||          |||| | |        ||  |  | ||||  | | | |   | ||    | ||  | |     ||||||| |    |   ||| |||  |||
GGAAAGATTTGTATGGTCTCTCATATCTGCAGTTGGAATATTTTGCTTGGGTTCCGGTGCTACAATTGTGCATGGAGTTCAAAATTTATGGAATTCTCATgtacgtcaccaaagtgtcatttgagtcataataacttttatgcacagaattacattttattttcaaatgtcat-caatcgccatccaagtacgataatgttcat-atccatacttatgtttgacag

upper sequence: AT1G51610.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA07G02280.2 (Glycine max), 5'ss of exon 4
AGAAAGATTTGTATGGTCTTTGATATCTGCTGTTGGCATCTTTTGCCTTGGGTCTGGTGCTACCATAGTTAATGGAGTACAGAACTTGTGGACTTCTTCGgtaatt-------ttcggcatatcttgtgac----tttgacgttatctgctatttgatctt-----ttggattattagatactctttgtacatttccttggtt--gttcatcaatttt---gactatctttctcag
 ||||||||||| ||||| ||||||||||||||||| |||||||| ||||| |||||||| ||| | ||||||||||||||||||||||||| | |   |||| ||       || |  || |    | |     ||| || |  |      | || | ||     || | |||||  || ||  |   |  ||||  |  ||    | ||  | |||   |||| || || ||||
GGAAAGATTTGTTTGGTCCTTGATATCTGCTGTTGGGATCTTTTGTCTTGGTTCTGGTGCCACCGTTGTTAATGGAGTACAGAACTTGTGGATTGCACAGgtatttaaccaaattggatatttgaaatcaaaatatttaacttctttcatcttatgtttttgtcagtttgcttattttattcttctgcgaattttctcttattcaagttattgacttttgagactttccttttcag

upper sequence: AT1G51610.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G23740.1 (Glycine max), 5'ss of exon 5
AGAAAGATTTGTATGGTCTTTGATATCTGCTGTTGGCATCTTTTGCCTTGGGTCTGGTGCTACCATAGTTAATGGAGTACAGAACTTGTGGACTTCTTCGgtaattttcggcat--atcttgtgactttgacgttatctgcta-tttgatcttttgg-attattagat-actctttgtacatttccttggttgttcatcaattttgactatc--tttctcag---------------
 ||||||||||| ||||| ||||||||||||||||| || ||||| ||||| |||||||| ||| | ||||||||||||||||||||||||| | |   |||| ||  |   ||      | |||  |  |  || |   ||  ||| ||||| ||   || | || |  ||  || ||    ||      | |||    |||     |||    || | ||               
GGAAAGATTTGTTTGGTCCTTGATATCTGCTGTTGGGATATTTTGTCTTGGTTCTGGTGCCACCGTTGTTAATGGAGTACAGAACTTGTGGATTGCACAGgtatttaaccaaattggatatttgaaatcaatatttttaacttctttcatcttatgttgttgtcagtttgcttattttattcatctgcaaattttctcttattcaagttattgacttttgagactttacttttccag

upper sequence: AT1G51610.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv09s0054g00220.t01 (Vitis vinifera), 5'ss of exon 5
AGAAAGATTTGTATGGTCTTTGATATCTGCTGTTGGCATCTTTTGCCTTGGGTCTGGTGCTACCATAGTTAATGGAGTACAGAACTTGTGGACTTCTTCGgtaattttcggcatatcttgtga---ctttgacgttatctgctatttgatcttttggattattagatactctttgtacatttccttggttgttcatcaattttgactatctttctcag
 |||||||| || |||||| |||| ||||| ||||| || ||||| ||||| ||||||||||| || ||| |||||||||| || |||||||||||    |||| ||    | | ||| ||     | ||   | |   | | | ||| | |  |  ||  ||   |  | | ||  ||| |||||    |                           
GGAAAGATTCGTTTGGTCTCTGATTTCTGCCGTTGGTATATTTTGTCTTGGTTCTGGTGCTACAATTGTTCATGGAGTACAAAATTTGTGGACTTCACATgtaacttagaacttctctggttctctccttccagattcttaccagttgctttggtatatggtttattgatttgtgagcatgtcctttccag---------------------------

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|125042610|gb|EL114879.1|EL114879
EST:     ACAGAACTTGTGGACTTCTTCG                         CCACCTCCGAATATGG-ATTAGCTGCTGTGGTAATTGGTGGTTCTTTTCTA
genomic: ACAGAACTTGTGGACTTCTTCGgtaattttcg ... tctttctcagCCACCTCCGAATATGGAATTAGCTGCTGTGGTAATTGGTGGTTCTTTTCTA