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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTCAGTACTGCTCAGAAATTGGACAAACTAGGAATGCGGGGAAGCGATACgtaatccccattctctcaagataaaaatatctgtgtaaattaaatccctttttcactgtctctttctctctaacatctgtctctcctgagcag

Basic information

species Arabidopsis thaliana
transcript AT3G45300.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G45300.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G052630_T02 (Zea mays), 5'ss of exon 7
ATTCAGTACTGCTCAGAAATTGGACAAACTAGGAATGCGGGGAAGCGATACgtaatccccattctctcaagataaaaatatctgtgtaaattaaatccctttttcactgtctctttctctctaacatctgtctctcctgagcag
 ||||||||||||||||||||||||||||| || ||| | |||||||| |||||       ||    |  | | |  | |  | || |||  ||||       ||   | |  |||  |||   |||||   ||| | |     
GTTCAGTACTGCTCAGAAATTGGACAAACTTGGCATGAGAGGAAGCGACACgta--tgatgtttctacttgctcatgaaacttatgaaaag-aaatggtgaaatcggggccaatttaactc---catctaa-tctgcag-----

upper sequence: AT3G45300.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G052630_T03 (Zea mays), 5'ss of exon 5
-------------------------------------------------ATTCAGTACTGCTCAGAAATTGGACAAACTAGGAATGCGGGGAAGCGATACgtaatccccattctctcaagataaaaatatctgtgtaaattaaatccctttttcactgtctctttctctctaacatctgtctctcctgagcag
                                                  ||||||||||||||||||||||||||||| || ||| | |||||||| |||||       ||    |  | | |  | |  | || |||  ||||       ||   | |  |||  |||   |||||   ||| | |     
TCTACAGCTTTCTGGTCATGTTACTGATGGTCCTTGTTCACGACTACAGGTTCAGTACTGCTCAGAAATTGGACAAACTTGGCATGAGAGGAAGCGACACgta--tgatgtttctacttgctcatgaaacttatgaaaag-aaatggtgaaatcggggccaatttaactc---catctaa-tctgcag-----

upper sequence: AT3G45300.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G381051_T01 (Zea mays), 5'ss of exon 7
ATTCAGTACTGCTCAGAAATTGGACAAACTAGGAATGCGGGGAAGCGATACgta----atccccattctctcaagataaaaatatctgtg-taaattaaatccctttttcactgtctctttctctctaacatctgtctctcctgagcag
 ||||||||||||||||| ||||||||||| || ||| | |||||||| |||||     |  | | |   ||| |||||  |||   | | | || | |  |||  ||| |||   |||   |||  |                     
GTTCAGTACTGCTCAGAAGTTGGACAAACTTGGCATGAGAGGAAGCGACACgtatggtgtttctacttgttcaggataattatacaagcggtgaactcaggcccaatttaactccatctaa-tctgcag--------------------

upper sequence: AT3G45300.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA12G07570.1 (Glycine max), 5'ss of exon 9
ATTCAGTACTGCTCAGAAATTGGACAAACTAGGAATGCGGGGAAGCGATACgta-atccccattctctcaagataaaaatatctgtgtaaattaaatccctttttcactgtctctttctct--ctaacat--ctgtctctcctgagcag
||||| |||||| ||||||||||| ||||| || ||||| ||||| ||||||||  |   |||  |||   |  | |||| ||| | || | |  || |||    |||| || ||  || |  || | |     |  |     | ||||
ATTCAATACTGCCCAGAAATTGGATAAACTTGGGATGCGAGGAAGTGATACgtatgtatgcatgttct---gtgagaaatttctatttataatccattcctaac-cactttccctcactttaactgataaaatggaattctgcgggcag

upper sequence: AT3G45300.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA11G15900.1 (Glycine max), 5'ss of exon 9
ATTCAGTACTGCTCAGAAATTGGACAAACTAGGAATGCGGGGAAGCGATACgtaatccccattctctcaagataaaaatatctgtgtaaattaaatccctttttcactgtctctttctct--ctaacat--ctgtctctcctgagcag
||||| |||||| ||||||||||| ||||| || ||||| ||||| ||||||||        | | |   |  | |||| ||| | || | |  || |||  | |||| || ||  || |  || |||     |  |     | ||||
ATTCAATACTGCCCAGAAATTGGATAAACTTGGGATGCGAGGAAGTGATACgtatgtatgcatatgttctgtgagaaatttctatatataatccattcctaat-cactttccctcactttaactgacaaaatgggattctgcgggcag

upper sequence: AT3G45300.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv06s0004g03140.t01 (Vitis vinifera), 5'ss of exon 9
ATTCAGTACTGCTCAGAAATTGGACAAACTAGGAATGCGGGGAAGCGATACgtaatccccattctctcaagataaaaatatctgtgtaaattaaatccctttttcactgtctctttctctctaacatctgtctctcctga----gcag
||||||||||||||||||||| |||||||| || ||||| ||||| || |||||| || ||||    ||  ||        ||       ||   || |||||                | | | |  | ||  |    |    ||||
ATTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACACgtaagcctcattactacagcatg-------ctcccccttttttctctcttttctgaaactggagaggatatgataattttcattaacaaaattgcag

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|125117616|gb|EL166685.1|EL166685
EST:     TTCAGTACTGCTCAGAAATTGGACAAACTAGGAATGCGGGGAAGCGATAC                         GTGTGAGCTTGTTTTTG
genomic: TTCAGTACTGCTCAGAAATTGGACAAACTAGGAATGCGGGGAAGCGATACgtaatcccca ... tcctgagcagGTGTGAGCTTGTTTTTG