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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttagatttctttctataactgatttcaagtcatgtaatctgctctcttagctatacgttttttattctgtttgaacttgacctcgtagGTATAAGCCTGGGCAAGTTTCATTGGAGAAAGACCTAATTCTTCCTTATGTTCCCAATGTTGATATCTGTGATACCAAATGCTTGTCAGAAAGTGCACCA

Basic information

species Arabidopsis thaliana
transcript AT5G16890.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G16890.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA11G11550.1 (Glycine max), 3'ss of exon 3
gtgagtttagatttctttctataactgatttcaagtcatgtaatctgctctcttagctatacgttttttattctgtttgaacttgacctcgtagGTATAAGCCTGGGCAAGTTTCATTGGAGAAAGACCTAATTCTTCCTTATGTTCCCAATGTTGATATCTGTGATACCAAATGCTTGTCAGAAAGTGCACCA
|| |||||   | |   | | | | ||   |  | |  | | || || |    | |  ||   |  |   |  | ||        | ||   ||||| ||||| || || ||||   ||||||||||||| ||||| ||||||||||||||||||||| | |||||| |||| || || || || |     |||
gttagttttcttctaactttgtgaatgcaatgcaatgctattatttgttggaattggcatgactggtcggtctttttc-------atctttcagGTACAAGCCAGGACAGGTTTATCTGGAGAAAGACCTGATTCTCCCTTATGTTCCCAATGTTGATTTATGTGATGCCAAGTGTTTATCTGAGACGAATCCA

upper sequence: AT5G16890.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA12G02010.1 (Glycine max), 3'ss of exon 3
gtgagtttagatttctttctataactgatttcaagtcatgtaatctgctctcttagctatacgttttttattctgtttgaacttgacctcgtagGTATAAGCCTGGGCAAGTTTCATTGGAGAAAGACCTAATTCTTCCTTATGTTCCCAATGTTGATATCTGTGATACCAAATGCTTGTCAGAAAGTGCACCA
|| | |||      ||    | ||||   |  | |  |||  ||    | |   |  |   | ||   |  ||| |||   |||   ||   ||||| |||||||| || ||||   | ||||||||||| ||||| ||||||||||||||||||||| | |||||| |||| || || || || |     |||
gttatttttctaacctgcacacaactttgtcaatgcaatgctattatttgttggaattg-gcattgagtggtcttttt---ctt---ctttcagGTACAAGCCTGGACAGGTTTATCTAGAGAAAGACCTGATTCTCCCTTATGTTCCCAATGTTGATTTATGTGATGCCAAGTGTTTATCTGAGACGAATCCA

upper sequence: AT5G16890.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv19s0014g00560.t01 (Vitis vinifera), 3'ss of exon 3
gtgagtttagatttctttctataactgatttcaagtcatgtaatctgctctcttagctatacgttttttattctgtttgaacttgacctcgtagGTATAAGCCTGGGCAAGTTTCATTGGAGAAAGACCTAATTCTTCCTTATGTTCCCAATGTTGATATCTGTGATACCAAATGCTTGTCAGAAAGTGCACCA
|| | |       || | || | |    | | || |     | |    | |    | ||||  |  |  |   || |     || |  |  |||||| |||||||| ||||||||| | || ||||| ||||| |||||||||||||| ||||| ||| | |||||| |||||||||  || ||||||| | ||
gtcactaatttactcatactgtgatgtgtctaaatttgatgagttcattatt---gatataactgctgaaacttgatcattttttaatt--tagGTACAAGCCTGGACAAGTTTCACTTGAAAAAGATCTAATACTTCCTTATGTTCCAAATGTCGATTTGTGTGATGCCAAATGCTCATCGGAAAGTGAATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaatctgctctcttagctatacgttttttattctgtttgaacttgacctcgtagGTATAAGCCTGGGCAAGTTTCATTGGAGAAAGACCTAATTCTTCCTTATGTTCCCAATGTTGATATCTGTGATACCAAATGCTTGTCAGAAAGTGCACCA
                                         acttgac  putative branch site (score: 4)
                  tatacgttttttatt  TA-rich tract