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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCTCAATGGCTTTGACAATCATGATTTTCCTGACAAAGGAATTTCAAAGCTCTGCCTCATCAATGAACTTGACGACTCTCTGCTACTTGTTGCATCATgtaatgttcacaactcttgccaccaagtctttcagatgtttgcaagttgattgaatatgggtgttgagtaatggtatctatgtcttacacatgcttttgggatttgggtag

Basic information

species Arabidopsis thaliana
transcript AT3G08850.1
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA09G41510.1 (Glycine max), 5'ss of exon 18
CTTCTCAATGGCTTTGACAATCATGATTTTCCTGACAAAGGAATTTCAAAGCTCTGCCTCATCAATGAACTTGACGACTCTCTGCTACTTGTTGCATCATgtaatgttcacaactcttgccaccaagtctttcagatgtttgcaagttgattgaatatgggtgttgagtaatggtatctatgtcttacacatgcttttgggatttgggtag
|| || ||  | ||||| ||||||||||||||||||||||||||||| |||||||||||  | ||||| ||||| ||     |||| |||| ||| ||||||| |  || | ||| ||         || ||    | |       |||   ||||||   ||||  | |||  | |  |||                             
CTACTGAACAGTTTTGATAATCATGATTTTCCTGACAAAGGAATTTCTAAGCTCTGCCTTGTAAATGAGCTTGATGAGAGCTTGCTTCTTGCTGCTTCATgtacttctctctactgtttaatatttttcattttattctcaaattattgtcagaatattaatgttagggaatctt-ttgatgcag--------------------------

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA18G44210.1 (Glycine max), 5'ss of exon 18
CTTCTCAATGGCTTTGACAATCATGATTTTCCTGACAAAGGAATTTCAAAGCTCTGCCTCATCAATGAACTTGACGACTCTCTGCTACTTGTTGCATCATgtaatgttcacaactcttgccaccaagtctttcagatgtttgcaagttgattgaatatgggtgttgagtaatggtatctatgtcttacacatgcttttgggatttgggtag
|| || ||  | ||||| |||||||||||||| |||||||||||||| |||||||||||  | ||||| ||||| ||     |||| |||| ||| ||||||| | ||| | ||| ||       | || ||    | ||  | | || ||||  || | || || | || | |   || | | | |  ||                    
CTGCTTAACAGTTTTGATAATCATGATTTTCCCGACAAAGGAATTTCTAAGCTCTGCCTTGTAAATGAGCTTGATGATAGCTTGCTTCTTGCTGCTTCATgtacttttctctactgtttaatattattcattt---tattctcgaatt-attg--taagagtatttaatattagcgactct-tatgatgcag-------------------

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA18G44160.1 (Glycine max), 5'ss of exon 3
CTTCTCAATGGCTTTGACAATCATGATTTTCCT-----GACAAAGGAATTTCAAAGCTCTGCCTCATCAATGAACTTGACGACTCTCTGCTACTTGTTGCATCATgtaatgttcacaactcttgccaccaagtc-tttcagatgtttgcaagttgattgaatatgggtgttgagtaatggtatctatgtcttacacatgcttttgggatttgggtag
 |  ||  ||  |||  | ||   ||||||  |     |  || |   |||   || | |      |  ||| |  | | ||         |||  ||      | | ||  |||  | | |    || |||   ||||  |  | |||    | | |||   ||  ||     |  |  ||                                   
TTAGTCTTTGTATTTCCCCATTTGGATTTTTGTTGTTGGCTAATGTTTTTTTGGAGTTTTCTACGGTATATGGAACT-ATGAGgtggcaacactgcttaacagttttgataatcatgattttcctaacaaaggaatttctaagctctgccttctaaatgagcttga-tgacagctttttctact---------------------------------

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: Vv08s0058g00890.t01 (Vitis vinifera), 5'ss of exon 18
CTTCTCAATGGCTTTGACAATCATGATTTTCCTGACAAAGGAATTTCAAAGCTCTGCCTCATCAATGAACTTGACGACTCTCTGCTACTTGTTGCATCATgtaatgttcacaactcttgccaccaagtctttcagatgtttgcaagttgattgaatatgggtgttgagtaatggtatctatgtcttacacatgcttttgggat-ttgggtag
||||||||  |||||||||||||| |||||||||| ||||||||||| || ||||||||  | || || ||||| |||    |||| |||||||| ||||||||| ||        |||     |      |  ||||        || | |   || |  || |     ||  | | |   ||| |    | ||||    |  ||  ||||
CTTCTCAACAGCTTTGACAATCATAATTTTCCTGATAAAGGAATTTCTAAACTCTGCCTTGTGAACGAGCTTGATGACAGCTTGCTGCTTGTTGCCTCATgtaatttttgtgttgattgtttggataatgattggatggagatgtttttacttgtta-gaatgctag---attttttatgaatctaagttttactttccctacattatgtag

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|116406444|gb|EG449036.1|EG449036
EST:     GCTCTGCCTCATCAATGAACTTGACGACTCTCTGCTACTTGTTGCATCAT                         GCGATGGGTCGGTCCGGATATGGAAAAACTATGCAACTAAGGGTAAACAAA
genomic: GCTCTGCCTCATCAATGAACTTGACGACTCTCTGCTACTTGTTGCATCATgtaatgttca ... atttgggtagGCGATGGGTCGGTCCGGATATGGAAAAACTATGCAACTAAGGGTAAACAAA
EST: gi|125163156|gb|EL189926.1|EL189926
EST:     CGACTCTCTGACTACTTGTTGCATCAT                         GCGATGGGTCGGTCCGGATATGGAAAAACTATGCAACTAAGGGTAAACAAA
genomic: CGACTCTCTG-CTACTTGTTGCATCATgtaatgttca ... atttgggtagGCGATGGGTCGGTCCGGATATGGAAAAACTATGCAACTAAGGGTAAACAAA