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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtgaaatttcaccccatttcttttctctttttttttgcaaataataaacacaatgatttcattcactccttaaactttaatatttataggctcttgtaatttcttttttcatgttcaaatttgatcagAAATGCCAGGGGTGGTATCTGTTTTTCCCAATGCTAAAAGAAAGCTTCACACCACTCATTCATGGGATTTCATAGGACTTTTGGGCAATGAATCAATGGA

Basic information

species Glycine max
transcript GLYMA11G09420.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G09420.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os06g41880.1 (Oryza sativa), 3'ss of exon 7
gtcagtgaaatttcaccccatttcttttctctttttttttgcaaataataaacacaatgatttcattcactccttaaactttaatatttataggctcttg--taatttcttttttcatgttcaaatttgatcagAAATGCCAGGGGTGGTATCTGTTTTTCCCAATGCTAAAAGAAAGCTTCACACCACTCATTCATGGGATTTCATAGGACTTTTGGGCAATGAATCAATGGA
                                 |||  ||| | ||      |    |||| || ||  |  | | |    | ||  |  |  | |  ||  | |   ||   |     | || | ||   |||| ||||| || ||  | || || || || ||  | || || |  || |||||||||||||||||||||||||| ||  | |  | | ||| | |    ||
-----------------------------gtaatttccttgtatatgcatggcttc-tgatgtctttagcatcctgacacgtgatcctggtgtgatgatgactgaaagctaactctgc-tgcacacttctgcagATATGCCTGGTGTCATCTCAGTGTTCCCAAACACAAAGAGGAGCCTCCACACCACTCATTCATGGGATTTCATGGGCTTGTCCGTCGATGCAGCGGCTGA

upper sequence: GLYMA11G09420.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv04s0044g01970.t01 (Vitis vinifera), 3'ss of exon 3
gtcagtgaaatttcaccccatttcttttctctttttttttgcaaataataaacacaatgatttcattcactccttaaactttaatatttataggctcttgtaatttcttttttcatg--ttcaaatttgatcagAAATGCCAGGGGTGGTATCTGTTTTTCCCAATGCTAAAAGAAAGCTTCACACCACTCATTCATGGGATTTCATAGGACTTTTGGGCAATGAATCAATGGA
||||||    ||        |  || || | |  || | |   | |  |  |   |||  |     ||     |   |   |      | | |  | ||| | |       ||  ||  |    |  ||| |||| ||||| || ||||| ||||| |||||||||   ||||||| ||| |||||||||||||| ||||||||||| || ||  ||||| | ||| | |||||
gtcagtctttttcttttttctccctgttttttccttctcttttagtgcttcaattaattttcctcctcgtgtgtcctatcatctcgagttttgattgttgaactagagaaatttgtgggtctggaaatga-cagATATGCCCGGCGTGGTCTCTGTGTTTCCCAATTTAAAAAGAAGGCTGCACACCACTCATTCGTGGGATTTCATGGGTCTCGTGGGCGAAGAAACCATGGA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actttaatatttataggctcttgtaatttcttttttcatgttcaaatttgatcagAAATGCCAGGGGTGGTATCTGTTTTTCCCAATGCTAAAAGAAAGCTTCACACCACTCATTCATGGGATTTCATAGGACTTTTGGGCAATGAATCAATGGA
 ctttaat  putative branch site (score: 4)
                    ttgtaatttctttttt  TA-rich tract