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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGCTGTCAGCAAAGACTAAAACTTACTTTACCACGGCTTTTGCAATGTGGGATGCAGACTTCTACGTCAAAGTCGATGATGATGTGCATGTAAATATAGgtgaatataaactctcttaaagtatctgaattgttttgtttcttgtcatctcaagtttgtgcctttgctcacttctgtcatggatatttctgcag

Basic information

species Arabidopsis thaliana
transcript AT4G26940.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G26940.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os03g38050.1 (Oryza sativa), 5'ss of exon 7
GAGCTGTCAGCAAAGACTAAAACTTACTTTACCACGGCTTTTGCAATGTGGGATGCAGACTTCTACGTCAAAGTCGATGATGATGTGCATGTAAATATAGgtgaatataa--actctcttaaagtatctga-attgttttgtttcttgtcatctc----aagtttgtgcctttgctcacttctgtcatggatatttctgcag
||  || | |||||||| ||| | | ||||   || || ||  | |||||||||||||| | |||| | ||||| ||||||||||| ||||||||||||||||   || |  || |||| |    |  | | ||   ||  ||   |||  | ||    ||  || ||  || | |||  | | | |   | |||       
GAATTGGCTGCAAAGACGAAATCGTTCTTTGTGACAGCCTTGTCCATGTGGGATGCAGAGTACTACATTAAAGTGGATGATGATGTACATGTAAATATAGgtgtgcattactaccctctgatctaacatcatatcccttcattaagtgttttttctgctaaaattttga-ttagttcatatattttacttacattaaattt-

upper sequence: AT4G26940.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os02g06840.2 (Oryza sativa), 5'ss of exon 8
GAGCTGTCAGCAAAGACTAAAACTTACTTTACCACGGCTTTTGCAATGTGGGATGCAGACTTCTACGTCAAAGTCGATGATGATGTGCATGTAAATATAGgtgaatataaactctcttaaagtatctgaattgttttgtttcttgtcatctca--agtttgtgcctttgctcacttctgtcatggatattt-ctgcag---
|  || || |  || || || || |||||| | |||||| || || |||||||||||||||| || || || || |||||||| ||||||||||| |||||| ||| |  |     || | |    |  |||||| | ||| |   ||| | |    | |     |  |   |      ||||   | | | | ||     
GCACTATCTGGCAAAACCAAGACATACTTTGCTACGGCTGTTTCATTGTGGGATGCAGACTTTTATGTGAAGGTTGATGATGACGTGCATGTAAACATAGgtaaatctccatatcttttatgcccttctattgttct-tttttgaacattttatcgatcttaagatgagaggaaagtgatcatatctgtgtgccgccatca

upper sequence: AT4G26940.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os06g46570.2 (Oryza sativa), 5'ss of exon 7
GAGCTGTCAGCAAAGACTAAAACTTACTTTACCACGGCTTTTGCAATGTGGGATGCAGACTTCTACGTCAAAGTCGATGATGATGTGCATGTAAATATAGgtgaatataaactctcttaaagtatctgaattgttttgtttcttgtcatctcaagtttgtgcctttgctcacttctgtcatggatatttctgcag-----------
||  |||| |  || || || || |||||| | || ||| || |  | |||||||| |||||||| || || || || |||||||||||||| ||||||||||||       |    |  |  |||||   | ||||  |   | |  |   |         || ||       ||||||||  | |||||  ||           
GAATTGTCTGGCAAAACCAAGACATACTTTGCTACAGCTGTTTCTTTATGGGATGCTGACTTCTATGTGAAGGTTGACGATGATGTGCATGTTAATATAGgtgaagtc---tttgtgttgaacatctgtcct-ttttaatctgtatggttgtacaaagtaatctatgtctga--ctgtcatgtttctttctaaagctcttaatata

upper sequence: AT4G26940.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv19s0090g00560.t01 (Vitis vinifera), 5'ss of exon 7
GAGCTGTCAGCAAAGACTAAAACTTACTTTACCACGGCTTTTGCAATGTGGGATGCAGACTTCTACGTCAAAGTCGATGATGATGTGCATGTAAATATAGgtgaatataaactctctta--aagtatctgaattgttttgtttct-tgtcatctcaagtttgtgcctttgctcacttctgtcatggatatttctgcag--
||  | ||||||||||| ||  | |||||  |||| ||| |||| |||||||||||||| ||||| |||||||| ||||||||||| ||||||||||||||| || ||  | |   | |  ||   ||    ||| ||  |   | | |    |||  ||      ||| |||| |  | || |  || |||  | ||  
GAATTATCAGCAAAGACGAAGGCATACTTCGCCACTGCTGTTGCTATGTGGGATGCAGATTTCTATGTCAAAGTAGATGATGATGTCCATGTAAATATAGgtaaagatgcagttattgactaatcttcccccttgcttgttgcgtatatagcatcattttaaattattttctcagtattttcttccattttttagtagta

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|116459771|gb|EG502363.1|EG502363
EST:     GGATGCAGACTTCTACGTCAAAGTCGATGATGATGTGCATGTAAATATAG                         CCACGCTTGGAGCAGAATTAGCAAGATACCGGATGAAGCCCCGAGTGTACA
genomic: GGATGCAGACTTCTACGTCAAAGTCGATGATGATGTGCATGTAAATATAGgtgaatataa ... atttctgcagCCACGCTTGGAGCAGAATTAGCAAGATACCGGATGAAGCCCCGAGTGTACA