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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGATGAAGGAAACTGAATATATGCGCCGTCAGAGGCATAAAATGGGAGCTGATGACTTTGAGCCATTGACAATGATTGGGAAGGGTGCATTCGGAGAGgtaacatctcttttatagatcatagtctgttactctgttttctcagcctctcattggcatgcatcatcttgaaatgttctctgtgatgcatccttcttgaaaggtcttcttaggccattttttttaccacagctaatttttcaaaaaagtatggcatgctaatttttctctttctctttgcag

Basic information

species Arabidopsis thaliana
transcript AT4G14350.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA02G00580.2 (Glycine max), 5'ss of exon 3
GGAGATGAAGGAAACTGAATATATGCGCCGTCAGAGGCATAAAATGGGAGCTGATGACTTTGAGCCATTGACAATGATTGGGAAGGGTGCATTCGGAGAGgtaacatctcttttatagatcatagtctgttactctgttttctcagcctctcattggcatgcatcatcttgaaatgttctctgtgatgcatccttcttgaaaggtcttcttaggccattttttttaccacagctaatttttcaaaaaagtatggcatgctaatttttctctttctctttgcag
|||||  ||||| |  |||   ||||||| |||||| ||||| ||||| |||||||||||||||||  |||| |||||||||||||||||||| |||||||||  |  |  ||| |  ||     |  ||||  | || ||    || ||| | |   |     |||||| |    | |   || |  |   |||  ||   |  ||                                                                            
GGAGAAAAAGGAGAGGGAAATCATGCGCCTTCAGAGACATAAGATGGGGGCTGATGACTTTGAGCCCCTGACTATGATTGGGAAGGGTGCATTTGGAGAGgta-tactttatttttgtatgcatctaagttaaaccgtctttat-gcttctaagtaaaac----catctttatgcatccaa-gtaaaaccatctttatgtttgacct----------------------------------------------------------------------------

upper sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA10G00830.1 (Glycine max), 5'ss of exon 2
GGAGATGAAGGAAACTGAATATATGCGCCGTCAGAGGCATAAAATGGGAGCTGATGACTTTGAGCCATTGACAATGATTGGGAAGGGTGCATTCGGAGAGgtaacatctcttttatagatcatagtctgttactctgttttctcagcctctcattggcatgcatcatcttgaaatgttctctgtgatgcatcct-tcttgaaaggtcttcttaggccattttttttaccacagctaatttttcaaaaaagtatggcatgctaatttttctctttctctttgcag
|||||  ||||| |  |||   ||||||| |||||| ||||| ||||| |||||||||||||||||  |||| |||||||||||||||||||| |||||||||  |  |  ||| |  ||     |  ||||  | || ||    || ||  | |   |     | |||| |  | |   || | ||| ||  | | || | || ||                                                                             
GGAGAAAAAGGAGAGGGAAATCATGCGCCTTCAGAGACATAAGATGGGGGCTGATGACTTTGAGCCCCTGACTATGATTGGGAAGGGTGCATTTGGAGAGgta-tactttatttttgtatgcatctaagttaaaccgtctttat-gcttccaagtaaaac----cgtctttatgtttgacct-taatgaattttatattaatagatc-----------------------------------------------------------------------------

upper sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA20G35110.1 (Glycine max), 5'ss of exon 2
GGAGATGAAGGAAACTGAATATATGCGCCGTCAGAGGCATAAAATGGGAGCTGATGACTTTGAGCCATTGACAATGATTGGGAAGGGTGCATTCGGAGAGgtaacatctcttttatagatcatagtctgttactctgttttctcagcctctcattggcatgcatcatcttgaaatgttctctgtgatgcatccttcttgaaaggtcttcttaggccattttttttaccacagctaatttttcaaaaaagtatggcatgctaatttttctctttctctttgcag
 ||||  ||||| |  ||||| ||||||| | |||||||||||||||| |||||||| ||||||||  |||| ||||| |||||||||||||| |||||||||            |||   ||| |||    || | |||||          ||||   |  |  |       ||| |     |  | ||    | ||  ||    || ||||   ||||         ||  |  | ||        |||| |                             
TGAGAAAAAGGAGAGGGAATACATGCGCCTTAAGAGGCATAAAATGGGGGCTGATGATTTTGAGCCCCTGACTATGATAGGGAAGGGTGCATTTGGAGAGgta------------tag--tataatctac--ctttattttc----------attgaagttaaaaaaaaaactatgcttctgatctttcacatatgttacaaaaa-ttgttagataatttgcaactttgcaaattttcttcttcttttgtatag-----------------------------

upper sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA10G32480.1 (Glycine max), 5'ss of exon 2
GGAGATGAAGGAAACTGAATATATGCGCCGTCAGAGGCATAAAATGGGAGCTGATGACTTTGAGCCATTGACAATGATTGGGAAGGGTGCATTCGGAGAGgtaacatct-cttttatagatcatagtctgttactctgttttctcagcctctcattggcatgcatcatcttgaaatgttctctgtgatgcatccttcttgaaaggtcttcttaggccattttttttaccacagctaatttttcaaaaaagtatggcatgctaatttttctctttctctttgcag
 ||||  ||||| |  ||||| ||||||| | |||||||||||||||| |||||||| ||||||||  | || ||||| |||||||||||||| || ||||||   ||| | |||||      |    |   |       |   |  |   || ||  |||   | |     |||  || || |  |     |    ||| ||  | ||| |     ||                                                                 
TGAGAAAAAGGAGAGGGAATACATGCGCCTTAAGAGGCATAAAATGGGGGCTGATGATTTTGAGCCCCTAACTATGATAGGGAAGGGTGCATTTGGGGAGgtatagtctgcctttattttcattgaagttaaaaaaaaactatgcttctgatctttcacatatgttac----aaaaattgtcagataatttgcaactttgcaattttttccttttttatag---------------------------------------------------------------

upper sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv05s0049g01220.t01 (Vitis vinifera), 5'ss of exon 2
GGAGATGAAGGAAACTGAATATATGCGCCGTCAGAGGCATAAAATGGGAGCTGATGACTTTGAGCCATTGACAATGATTGGGAAGGGTGCATTCGGAGAGgtaacatctcttttatagatcatagtctgttactctgttttctcagcctctcattggcatgcatcatcttgaaatgttctctgtgatgcatccttcttgaaaggtcttcttaggccattttttttaccacagctaatttttcaaaaaagtatggcatgctaatttttctctttctctttgcag
||||| ||||||||| |||||||||||||  ||||||||||||||||| || ||||| |||||||||||||||||||| || || |||||||| || |||||   ||  ||||  |   | ||| |   |||   | ||||  | || |    ||||    |  ||  ||   |  | ||        ||||  |||  |||  | | || |                                                                       
GGAGAAGAAGGAAACAGAATATATGCGCCTCCAGAGGCATAAAATGGGTGCGGATGATTTTGAGCCATTGACAATGATAGGAAAAGGTGCATTTGGGGAGgt---atgactttcttgctttatactggatta---tatttttcctgcatt---ttggagccctccaggttattacatgctt-------catctatctgaaaatctttactgaaatt-------------------------------------------------------------------

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|47828550|gb|CK118234.1|CK118234
EST:     CTGATGACTTTGAGCCATTGACAATGATTGGGAAGGGTGCATTCGGAGAG                         GTTAGGATCTGTAGGGAGAAGGGAACAGGCAATGTCTATGCAATGAAGAAG
genomic: CTGATGACTTTGAGCCATTGACAATGATTGGGAAGGGTGCATTCGGAGAGgtaacatctc ... ctctttgcagGTTAGGATCTGTAGGGAGAAGGGAACAGGCAATGTCTATGCAATGAAGAAG