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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcaaaatcaaatctctatttcctttttcttctttctcaagtaaataaacagtttcttaatatttcctctgttgtgtgattacagGATTGGGCTTCTCAGAGTGGATTAAAGATTGCAACAGAGTTGTGTGGTTTTGTGACGATTTTATCAGGAACTTTTCTGCTTCACAAGACCAAAGATATGG

Basic information

species Arabidopsis thaliana
transcript AT3G23870.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G23870.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os02g29510.1 (Oryza sativa), 3'ss of exon 8
-----gtcaaaatcaaatctctatttcctttttcttctttctcaagtaaataaacagttt--cttaatattt----cctctgttgtgtg----attacagGATTGGGCTTCTCAGAGTGGATTAAAGATTGCAACAGAGTTGTGTGGTTTTGTGACGATTTTATCAGGAACTTTTCTGCTTCACAAGACCAAAGATATGG
      |  |  ||||||  || |||  | ||||   ||   |    ||     || |||    | |||| |    ||   ||||  |     ||| |||||||     || | || || |  | ||||||||||| |||| |||||||||||||| ||  |  ||||||||||||| || |||||||| |  |||||||
agtgttttgagttcaaataactgttttgtatttccaattcaactgacaatctgccatttttgtctgatatatttggccatcgttgccttttctattccagGATTCATTCTCACGGAATGCAACACAGATTGCAACACAGTTATGTGGTTTTGTGACCATCGTTGCAGGAACTTTTCTCCTGCACAAGACTAGGGATATGG

upper sequence: AT3G23870.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os04g30450.1 (Oryza sativa), 3'ss of exon 7
--------------------gtcaaaatcaaatctctatttcctttttcttctttctcaagtaaataaacagtttcttaatatttcctctgttgtgtgattacagGATTGGGCTTCTCAGAGTGGATTAAAGATTGCAACAGAGTTGTGTGGTTTTGTGACGATTTTATCAGGAACTTTTCTGCTTCACAAGACCAAAGATATGG
                    |  |    | || |  |  ||  | |  ||| |||   |  |  | |||||  |  || ||  | |||   || |   ||| ||||| ||||| ||||||| || |    |||| ||||| ||| | ||||| |||||||| ||| |  ||||||||||||| || |||||||||| ||||||||
attcgatactaaacatttccgataggtgctaacccattgttaatgtgacttttttgg-agattgacaaaca--tatttgatggtccctaaattttc--attccagGACTGGGCCTCTCAGAATGCAACGCAGATAGCAACCGAGCTTTGTGGGTTTGTGACAATTGTTGCAGGAACTTTTCTTCTGCACAAGACCAGAGATATGG

upper sequence: AT3G23870.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv05s0029g00620.t01 (Vitis vinifera), 3'ss of exon 6
-----gtcaaaatcaaatctctatttcctttttcttctttctcaagtaaataaacagtttcttaatatttcctctgtt----------gtgtgattacagGATTGGGCTTCTCAGAGTGGATTAAAGATTGCAACAGAGTTGTGTGGTTTTGTGACGATTTTATCAGGAACTTTTCTGCTTCACAAGACCAAAGATATGG
      |  |     | ||| || ||   ||   || ||| | || | |||     |||  ||  | |    ||  ||          ||   | | ||||| ||||   | || | ||||| | | ||||  || ||  | |||||||||||||| ||| | || ||||| ||||| |||||||| ||||| |||||||
aactttttgattatgagtctatagtttaattaatttatttgttaatttaattgtttgttcttttctttcctttcctttccttttcttggttgaaattcagGACTGGGACACACAAAATGGATCACAAATTGTCACTGAACTCTGTGGTTTTGTGACTATTCTCTCTGGAACCTTTCTCCTTCACAAAACCAAGGATATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttctcaagtaaataaacagtttcttaatatttcctctgttgtgtgattacagGATTGGGCTTCTCAGAGTGGATTAAAGATTGCAACAGAGTTGTGTGGTTTTGTGACGATTTTATCAGGAACTTTTCTGCTTCACAAGACCAAAGATATGG
                        tcttaat  putative branch site (score: 3)
        aagtaaataaacagtt  TA-rich tract