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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAAAATTTGCGGTACCATAAGATAATCATCTTAACAGATGCAGATGTTGATGGTGCACATATCCGGACACTTCTGTTGACCTTTTTCTTCAGATATCAGgtattagttaaggattaaacaaaaatatcccctaaatatttggcagagttaatctagttgtaaacatgacttaaaatttcttctacag

Basic information

species Arabidopsis thaliana
transcript AT5G04130.1
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G04130.1 (Arabidopsis thaliana), 5'ss of exon 17
lower sequence: LOC_Os01g16290.1 (Oryza sativa), 5'ss of exon 17
AGAAAATTTGCGGTACCATAAGATAATCATCTTAACAGATGCAGATGTTGATGGTGCACATATCCGGACACTTCTGTTGACCTTTTTCTTCAGATATCAGgtattagt-------------taaggattaaacaaaaatatcccctaaatatttggcagagttaatctagttgtaaacatgacttaaaatttcttctacag-
 |||  | | || || ||||||||| ||||  | || ||||| ||||| |||||||||||||||||||| |||||  | || || ||||| |||||||||||| |  |             ||  ||| ||||   | |     || |    || |  | |  |  |||| |||    |   |  | || || ||||   | 
GGAAGCTCTTCGATATCATAAGATAGTCATACTCACTGATGCTGATGTAGATGGTGCACATATCCGGACTCTTCTCCTTACTTTCTTCTTTAGATATCAGgtacttctaccctctttctgatactgatcaaactggagttatggctgatctgttag--gggccatcctaggtgttgcaacttcaaataaattgttctctggt

upper sequence: AT5G04130.1 (Arabidopsis thaliana), 5'ss of exon 17
lower sequence: GLYMA19G31030.1 (Glycine max), 5'ss of exon 17
AGAAAATTTGCGGTACCATAAGATAATCATCTTAACAGATGCAGATGTTGATGGTGCACATATCCGGACACTTCTGTTGACCTTTTTCTTCAGATATCAGgtattagttaaggattaaacaaaaatatcccctaaatatttggcaga-gttaatctagttgt--------aaacatgacttaaaatttcttctacag--------------------------
|||     | || || |||||||| || || || || ||||| ||||| |||||||| || ||||| ||||| ||  |||| |||||||||||||||||||||  |  | | |   |||    || |||  ||   ||  ||| ||| |  || ||||| |         | | || | | |||||   |  |  |                           
AGATGCACTCCGATATCATAAGATTATTATTTTGACTGATGCTGATGTGGATGGTGCCCACATCCGAACACTGCTACTGACATTTTTCTTCAGATATCAGgta--aaatgatggcaaaatgctaaaatctactct-tacatggaagatgaaaacctagtcggctcctataagatataaatcaaaataaatgatcaaatttgatgcagtgtttctttcttgcag

upper sequence: AT5G04130.1 (Arabidopsis thaliana), 5'ss of exon 17
lower sequence: GLYMA03G28290.1 (Glycine max), 5'ss of exon 17
AGAAAATTTGCGGTACCATAAGATAATCATCTTAACAGATGCAGATGTTGATGGTGCACATATCCGGACACTTCTGTTGACCTTTTTCTTCAGATATCAGgtat--------tagttaaggattaaacaaaaatatcccctaaa--tatttggcagagttaatctag--------ttgtaa-acatgacttaaaatttcttctacag--------------------------
 ||     | || || |||||||| || || || || ||||| ||||| |||||||| |||||||| ||  | ||  |||| |||||||||||||||||||||          ||  || ||| | | ||    |    ||| |  ||  ||| |||   |||| |          ||||| | || | | |||||   |  |  |                           
GGATGCACTCCGATATCATAAGATTATTATTTTGACTGATGCTGATGTGGATGGTGCCCATATCCGAACTTTGCTACTGACATTTTTCTTCAGATATCAGgtaaagtatacacagcaaatgatgacaaaaggccaaaatctacacttacatggaagatgaaatccaagtcagctcctgtaagatataaatcaaaataaatgatcaaatttgatgcagtggttctttcttgcag

upper sequence: AT5G04130.1 (Arabidopsis thaliana), 5'ss of exon 17
lower sequence: Vv08s0007g05120.t01 (Vitis vinifera), 5'ss of exon 17
AGAAAATTTGCGGTACCATAAGATAATCATCTTAACAGATGCAGATGTTGATGGTGCACATATCCGGACACTTCTGTTGACCTTTTTCTTCAGATATCAGgtattagttaagga---ttaaacaaaaatatcccc-taaatatttggcagagttaatctagttgtaaacatgacttaaaatttcttctacag----------------------------------
 |||  | | || || ||||| || ||||||||||||||||| ||||| |||||||| |||||||| || || |||||||| |||||||| ||||||||||||    ||  |||   ||     ||| |||     | || ||   |   | | | || |    |   ||  |  |  | ||  ||| | |                                   
GGAAGCTCTCCGTTATCATAAAATCATCATCTTAACAGATGCTGATGTGGATGGTGCTCATATCCGAACTCTGCTGTTGACTTTTTTCTTTAGATATCAGgtagatattggggagacttgtctcaaattatttatgtgaacataaagataaataagtcaaagcttcttca-aatgtttacttagttcgaaaaataatataatttatgctgtttttcttgctttcag

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|125035212|gb|EL107481.1|EL107481
EST:     CGGACACTTCTGTTGACCTTTTTCTTCAGATATCAG                         AGAGCCTTGTTTGATGCAGGTTGCATATA
genomic: CGGACACTTCTGTTGACCTTTTTCTTCAGATATCAGgtattagtta ... tcttctacagAGAGCCTTGTTTGATGCAGGTTGCATATA