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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagctactagagattttccttctttacacagatttttcgagttcatggattgattgatgttgtctcatgttcacataaattttgagcgttattagcttttcctgtattgttgggtgttcctgagacgtggtttatggaatataaacacagACTTTTCTCCCCGGAGGCAGCTTGTGAGGTAATTGAAGCAGAGAGACATTCCCATGTTTTCTATGAGGCCGAGCCCGATATCTGGATGGTCATG

Basic information

species Arabidopsis thaliana
transcript AT1G80910.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G80910.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA05G34400.1 (Glycine max), 3'ss of exon 1
gttagctactagagattttccttctttacacagatttttcgagttcatggattgattgatgttgtctcatgttcacataaattttgagcgttat-tagcttttcctgtattgttgggtgttcctgagacgtggtttatggaatataaacacagACTTTTCTCCCCGGAGGCAGCTTGTGAGGTAATTGAAGCAGAGAGACATTCCCATGTTTTCTATGAGGCCGAGCCCGATATCTGGATGGTCATG
                                                                                  ||||   ||||  |  |  | | | | |  |    |  |  |   |  || || ||    |  ||   |||| | ||||| || ||||| || || || || || |||||||| |||||||| ||||||||||| |||||||| |||||||||||||| ||||||
---------------------------------------------------------------------------------gtttgtttgttaggttaccctgcttatctc-tcaaattattttactaattgattcattc--tgcaattccagAATCTTCTCGCCAGAGGCTGCCTGCGACGTCATCGAAGCAGAAAGACATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATG

upper sequence: AT1G80910.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA08G05260.2 (Glycine max), 3'ss of exon 1
gttagctactagagattttccttctttacacagatttttcgagttcatggattgattgatgttgtctcatgttcacataaattttgagcgttattagcttttcctgtattgttgggtgttcctgagacgtggtttatggaatataaacacagACTTTTCTCCCCGGAGGCAGCTTGTGAGGTAATTGAAGCAGAGAGACATTCCCATGTTTTCTATGAGGCCGAGCCCGATATCTGGATGGTCATG------
                                                                                   ||      |||     | ||   | || ||   |  | |       |  ||| ||   |  ||   |||| | ||||| || ||  | ||||| ||||| || ||||| || || ||||| ||||||||||| |||||||| |||||||||||||| |||||       
----------------------------------------------------------------------------------gtttctttctatctttctatctactcttattacttcattccatttatttatttgtgctcttcaattgcagAATCTTCTCTCCAGACTCTGCTTGCGAGGTCATCGAAGCTGAAAGGCATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATTGTTCGT

upper sequence: AT1G80910.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA08G05260.1 (Glycine max), 3'ss of exon 1
gttagctactagagattttccttctttacacagatttttcgagttcatggattgattgatgttgtctcatgttcacataaattttgagcgttattagcttttcctgtattgttgggtgttcctgagacgtggtttatggaatataaacacagACTTTTCTCCCCGGAGGCAGCTTGTGAGGTAATTGAAGCAGAGAGACATTCCCATGTTTTCTATGAGGCCGAGCCCGATATCTGGATGGTCATG
                                                                                   ||      |||     | ||   | || ||   |  | |       |  ||| ||   |  ||   |||| | ||||| || ||  | ||||| ||||| || ||||| || || ||||| ||||||||||| |||||||| |||||||||||||| ||||| 
----------------------------------------------------------------------------------gtttctttctatctttctatctactcttattacttcattccatttatttatttgtgctcttcaattgcagAATCTTCTCTCCAGACTCTGCTTGCGAGGTCATCGAAGCTGAAAGGCATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATT

upper sequence: AT1G80910.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv01s0011g06030.t01 (Vitis vinifera), 3'ss of exon 1
gttagctactagagattttccttctttacacagatttttcgagttcatggattgattgatgttgtctcatgttcacataaattttgagcgttattagcttttcctgtattgttgggtgttcctgagacgtggtttatggaatataaacacagACTTTTCTCCCCGGAGGCAGCTTGTGAGGTAATTGAAGCAGAGAGACATTCCCATGTTTTCTATGAGGCCGAGCCCGATATCTGGATGGTCATG
                                               ||  ||||||       | |  ||| || | |    |||| |  | ||  ||  |  | |||||||    |||  | | | |      || |  | |     |||| | || || || ||||| ||||||||||| || ||||||||||| ||||| ||||||||  || |||| ||||| ||||| ||||||||||||
-----------------------------------------------tgatttgattt---ccatgtggtgtccaaacatgccttgatcaatttttcctcattgtctattgtttccagttatttaaaggcataacatcggttttg--tgcagAATCTTTTCTCCAGAGGCTGCTTGTGAGGTTATAGAAGCAGAGAGGCATTCTCATGTTTTTCATCAGGCTGAGCCAGATATTTGGATGGTCATG

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|125068188|gb|EL134419.1|EL134419
EST:     TATCGGTTATAGGTCTCAGTGAAGGGCTTATCACGTTCACGAG                         ACTTTTCTCCCCGGAGGCAGCTTGTGAGGTAATTGAAGCAGAGAGACATTC
genomic: TATCGGTTATAGGTCTCAGTGAAGGGCTTATCACGTTCACGAGgttagctact ... ataaacacagACTTTTCTCCCCGGAGGCAGCTTGTGAGGTAATTGAAGCAGAGAGACATTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttcctgtattgttgggtgttcctgagacgtggtttatggaatataaacacagACTTTTCTCCCCGGAGGCAGCTTGTGAGGTAATTGAAGCAGAGAGACATTCCCATGTTTTCTATGAGGCCGAGCCCGATATCTGGATGGTCATG
                                   tttatggaatataaa  TA-rich tract