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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCTTGGAATGTGTAGCATgtgtgtagtctttgcagtcttttcattctacatgctcgtgcatttttatctgagttttgcttgtcactgagatggttacatcattagtttttgaatttcagctcttttcatttcttatggcaattttcttgtctatttttgttttgcag

Basic information

species Arabidopsis thaliana
transcript AT4G24740.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G24740.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA04G36360.1 (Glycine max), 5'ss of exon 5
GGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCTTGGAATGTGTAGCATgtgtgtagtctttgcagtcttttcattctacatgctcgtgcatttttatctgagttttgcttgtcactgagatggttacat-cattagtttttgaatttcagctcttttcatttcttatggcaattttcttgtctatttttgttttgcag
||| | || ||||||||||||||||||||||||| |||||| || |||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||| |||         |  ||  ||| | |  |   |||| || |   |||    | |  |       |||   | ||||| | | |  | | | | | ||  ||  |                                    
GGACCAAGCTTATACGATTTTCTTCGGAAAAACAGTTATCGTTCATTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTGTTGGAATGTGTAGCATgtgtgtagtattt---------tacttgaacaagtttct---ttttgattta--tttcatctatttccattcctgttttgtgcattattatatccaatactgtttttaacagat------------------------------------

upper sequence: AT4G24740.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA06G18530.1 (Glycine max), 5'ss of exon 5
GGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCTTGGAATGTGTAGCATgtgtgtagtctttgc-------agtcttttcattctacatgctcgtgcatttttatctgagttttgcttgtcactgagatggttacatcattagtttttgaatttcagctcttttcatttcttatggcaattttcttgtctatttttgttttgcag
||| | || ||||||||||||||||||||||||| |||||| || |||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||| ||| |       ||| | ||  |  |  ||  || |  ||||  ||     |||||    | |     |||  ||||  | |  ||||   |                                                      
GGACCAAGCTTATACGATTTTCTTCGGAAAAACAGTTATCGTTCATTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTATTGGAATGTGTAGCATgtgtgtagtatttacttgaacaagtttctttttgatttat-ttcatctatttccattcctattttgtgcat-atcattatg--tacaatactgtttttaacaga----------------------------------------------------

upper sequence: AT4G24740.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA17G13440.2 (Glycine max), 5'ss of exon 5
GGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCTTGGAATGTGTAGCATgtgtgtagtctttgc-------ag--tcttttcattctacatgctcgtgcatttttatctgagttttgcttgtcactga-gatggttacat---cattagtttttgaa---tttcagctcttttcatttct-----tatggcaattttct---tgtctatttttgt---tttgcag
||| | || ||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||| | ||||| ||||||||| ||||||||||||||| ||| |       ||  ||||||    |||  |  ||    |  |||  ||  |||||     | |||||  ||||  | |    |  ||| | |   |   | ||||    | |  ||| |     |  |  |  |||||   ||| | ||||| |   |||||||
GGACCAAGCTTATACGATTTTCTTCGGAAAAACAATTATCGCTCATTTCCCATTGATCTTGTCCGTGAGATTGGCAGACAACTATTGGAATGTATAGCATgtgtgtagtatttacttgaactagcttctttttgagctatttcttc-catacatttcactttgttttatccttaactgataatggcgatacgtgctgtagatctaatatactgtcagactgtgttgtttttgtcagtgggttaggtttctaactgtatctttttatgaatttgcag

upper sequence: AT4G24740.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA05G02740.1 (Glycine max), 5'ss of exon 5
GGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCTTGGAATGTGTAGCATgtgtgtagtctttgc-------ag--tcttttcattctacatgctc-gtgcatttttatctgagtt-ttgcttgtcactgagatggttacat----------cattagtttttgaatttcagctcttttcatttct-tatggcaattttct-----tgtctatttttgt-tttgcag
||| | || ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||   ||||| ||||||||| ||||||||||||||| ||| |       ||  ||||||    |||  |  ||  | |||||   | ||  || |   |    | | |      |||||           | ||   | | |   || | | ||||  | ||| |  |  |  |||||     | ||| ||| ||  |||||||
GGACCAAGCTTATACGATTTTCTTCGGAAAAACAATTATCGCTCATTTCCCATTGATCTTGTCCGTGAGATTGGCAAACAACTATTGGAATGTATAGCATgtgtgtagtatttacttgaactagcttctttttgagctatttcttccatacatttcactttggattatcattaactaataatggcaatacatgttgtagatctaatatactgtcagactctgttgtttttgtctctgtgggttagctttctaatagtatctttttatgaatttgcag

upper sequence: AT4G24740.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv17s0000g09500.t01 (Vitis vinifera), 5'ss of exon 6
GGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCTTGGAATGTGTAGCATgtgtgtagt------ctttgcagtcttttcattctacatgctcgtgcatttttatctgagttttgcttgtcactgagatggttacatcattagtttttgaatttcagctcttttcatttcttatggcaattttcttgtctatttttgttttgcag
||| | || |||||||||||||| |||||||||||||||||||| |||||||||||||||||||||||||||||| | ||||| |||||||||||||||||||||||||       |||||    ||||  ||| |     |  ||| |||   | |  || |      || || | |  |||  ||   || | |||| |                                                      
GGACCAAGCTTATACGATTTTCTACGGAAAAACAATTATCGCTCATTTCCCATTGATCTTGTCCGTGAGATTGGCAGACAACTGTTGGAATGTGTAGCATgtgtgtagtaaatacttttgctagtttttttttcaatcca-taatgcgtttgcctttt-gtgtattccatctcttatactgttgaatgtctactatttgtaa-----------------------------------------------------

upper sequence: AT4G24740.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: PP1S425_6V6.2 (Physcomitrella patens), 5'ss of exon 6
GGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCTTGGAATGTGTAGCATgtgtgtagtctttgcagtcttttcattctacatgctcgtgcatttttatctgagttttgcttgtcactgagatggttacatcattagtttttgaatttcagctcttttcatttcttatggcaattttcttgtctatttttgttttgcag
||  | ||||| |||||||||||||| ||||||||||||||  | ||| |    |||||||| || ||  ||||| | ||||||||||| | |||||| |||    ||||       | ||||   | || ||  | |   ||  | || ||| |||| ||         ||||  ||  || |||  |  |  ||   |  | |  ||  |                                     
GGGCCAAGTTTGTACGATTTTCTTCGAAAAAACAATTATCGACCGTTTTCTGCAGATCTTGTTCGAGATTTTGGCCGCCAACTCTTGGAGTCTGTAGCTTgta---agtc------atattttgtatgtatatatttgcaaataat-atatga-ttttcctcagtgtatggatgtgtatttc-ttatctgattcatcagaaatatgatctgt-------------------------------------

upper sequence: AT4G24740.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: PP1S100_121V6.1 (Physcomitrella patens), 5'ss of exon 8
GGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCTTGGAATGTGTAGCATgtgtgtagtctttgcagtcttttcattctacatgctcgtgcatttttatctgagttttgcttgtcactgagatggttacatcattagtttttgaatttcagctcttttcatttcttatggcaattttcttgtctatttttgttttgcag
||| |||| ||||||||||| ||||| ||||||||||||||  | ||| |    ||||| || || ||  ||||| | || || ||||| |  ||||| |||| ||    | ||   ||| ||||||  | ||| ||| | | ||| |    ||  |   ||| |   ||  |  | |  | ||  ||| |  ||   | |   |||   || || || |                             
GGACCGAGCTTATACGATTTCCTTCGAAAAAACAATTATCGACCATTTTCTGCAGATCTCGTTCGCGACTTTGGCCGCCAGCTGTTGGAGTCCGTAGCTTgtgagttacttgtgggatctgttcattgaatatg-tcgcgtaatttgacagcagaatcaattggcg--gaattattgatgttatatgttgtgaaa--gcggtaatttatgttcctgattgttgcag-----------------------

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|164191703|gb|ES048084.1|ES048084
EST:     TGGCAACTCTTGGAATGTGTAGCAT                         TTATGCATGACTTGCGCATGATTCATACGG-CCTTAAACCAGAAAATATTC
genomic: TGGCAACTCTTGGAATGTGTAGCATgtgtgtagtc ... tgttttgcagTTATGCATGACTTGCGCATGATTCATACGGACCTTAAACCAGAAAATATTC