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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCATATGATAGAGCTGCTATTAAATTCCGTGGAGTAGAAGCGGATATCAATTTCAACATCGACGATTATGATGATGACTTGAAACAGgtaaatataaattataaactatattggtttttattaacgatttttaaaggtttgggagattaatattgaaattgaattttatag

Basic information

species Arabidopsis thaliana
transcript AT4G36920.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G36920.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA05G18170.1 (Glycine max), 5'ss of exon 4
AGCATATGATAGAGCTGCTATTAAATTCCGTGGAGTAGAAGCGGATATCAATTTCAACATCGACGATTATGATGATGACTTGAAACAGgtaaata-taaattataaactatattggtttttattaacgatttttaaaggtt-----tgggagattaatattgaaattgaattttatag-------------------------------------------------------------
 |||||||||||||| |||||||||||||| ||||| || ||||| || || |||||||| || |||||||| ||||||||||| ||||| |  | |   | |  |  ||||||   ||||||     || || ||  ||      |   |  |  |   | |  ||   |  || ||                                                             
TGCATATGATAGAGCGGCTATTAAATTCCGAGGAGTGGAGGCGGACATTAACTTCAACATTGAAGATTATGAAGATGACTTGAAGCAGgtgatcaatttgtgaatatttatattttgttttatc--ttatcttgaacagtcacacctcatacgtataggatcaccttatctcctacagttagtgctattttttctgtcttgaagtactctcatgattttgttaaatgcaatgttaatag

upper sequence: AT4G36920.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA01G39520.2 (Glycine max), 5'ss of exon 4
AGCATATGATAGAGCTGCTATTAAATTCCGTGGAGTAGAAGCGGATATCAATTTCAACATCGACGATTATGATGATGACTTGAAACAGgtaaat-ataaattataaactatattggtttttattaacgatttttaaag-gtttgggagattaatattgaaattgaattt-tatag------------------------------------------------------------------------------
 || |||||||||||||||||||||||||| ||||| || || || ||||| ||||||||||| || ||||| || |||||||| ||||| | | || ||     |   |    |  | |    || |   ||||     | | | | | |    |   |  | |  || || ||                                                                              
TGCGTATGATAGAGCTGCTATTAAATTCCGGGGAGTGGAGGCAGACATCAACTTCAACATCGAAGACTATGAGGAAGACTTGAAGCAGgtgagtcatcaagagagagggagggagaatctgtggaaaggcatttatcttatctcgaacagtcgcgtgataccttatcttctacagtttcttaatcactagctattagtattttatcaatcttgaattggtatgatttggctaattaatgttgtgttaatatag

upper sequence: AT4G36920.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA11G05720.1 (Glycine max), 5'ss of exon 3
AGCATATGATAGAGCTGCTATTAAATTCCGTGGAGTAGAAGCGGATATCAATTTCAACATCGACGATTATGATGATGACTTGAAACAGgtaaat-------ataaattataaactatattggtttttattaacgatttttaaaggtttgggagattaatattgaaattgaattttatag----------------------------------------------------------------
 || ||||||||||| |||||||||||||| ||||| || || || ||||| ||||||||||| || ||||| || |||||||| ||||| | |          |   | | | | | | |      |||| |   | |  ||   | | | |||   |  |    |  | || |  |                                                                 
TGCGTATGATAGAGCAGCTATTAAATTCCGGGGAGTGGAGGCAGACATCAACTTCAACATCGAAGACTATGAGGAAGACTTGAAGCAGgtgagtcatcaaagagagggagagaatctgtggaaaggcattatcttatctcgaacagtcgcgtgataccttatcttctacagttcttaattagtgagtattttatcaatcttgaactggtataatttagctaattaatgtttatgttaatatag

upper sequence: AT4G36920.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA17G18640.1 (Glycine max), 5'ss of exon 4
AGCATATGATAGAGCTGCTATTAAATTCCGTGGAGTAGAAGCGGATATCAATTTCAACATCGACGATTATGATGATGACTTGAAACAGgtaaatataaattataaactatattggtttttattaacgatttttaaaggtttgggagattaatattgaaattgaattttatag---------------------------------------------------------------------------------------
 || ||||||||||| |||||||||||||| ||||| || || || || || ||||| || || || ||||| ||||||||||| ||||| |  |  | || |  | ||| ||  ||||||||  |||| |  |    |||     ||| || ||    |  |   | |||                                                                                        
TGCTTATGATAGAGCGGCTATTAAATTCCGAGGAGTGGAGGCTGACATTAACTTCAATATTGAAGACTATGAAGATGACTTGAAGCAGgtgatca--atttgtggattatgttt-tttttatt--cgatataaatgcatttatcgtatttatcttatcttgaacagtcatacgtataggatgcaccttatctcctacagttagtgttttttttttatcttgaattattctcatgattttgttaaatgcaatgttaatag

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|124752979|gb|EH843109.1|EH843109
EST:     AGCGGATATCAATTTCAACATCGACGATTATGATGATGACTTAGAAACAG                         ATGACTAATTTAACCAAGGAAGAGTTCGTACACGTACTTCGCCGACAAAG
genomic: AGCGGATATCAATTTCAACATCGACGATTATGATGATGACTT-GAAACAGgtaaatataa ... aattttatagATGACTAATTTAACCAAGGAAGAGTTCGTACACGTACTTCGCCGACAAAG