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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttgttttatgggctaataagtatatgttttttgacgagtagtaattgattaataatcttgcttgtttttgtagCTTGCAAATATAATGGGTCGTTTCCTGTGGCTGACATGTCCCAGAGAG

Basic information

species Arabidopsis thaliana
transcript AT4G22340.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G22340.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv00s0598g00010.t01 (Vitis vinifera), 3'ss of exon 7
---------------gtaagcttgttttatgggctaataagtatatgttttttga-cgagtagt----aattgattaataat-cttgcttgtttttgtagCTTGCAAATATAATGGGTCGTTTCCTGTGGCTGACATGTCCCAGAGAG
               | | |  | |||  | |  | |||  |   || | |   | |   |  |    ||    |  | ||| |   ||||||  || ||||||||||||| ||||||||||| | |||||| |||||||| ||  ||
tagggatgtgctctggcaggtctttttgtttgtttcatatttggttgctatgcaagcacatcattctaaacccttgtacaataccaacttgttcatgcagCTTGCAAATATCATGGGTCGTTTTCAGTGGCTAACATGTCCAAGGAAG

upper sequence: AT4G22340.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv00s0187g00380.t01 (Vitis vinifera), 3'ss of exon 6
---------------gtaagcttgttttatgggctaataagtatatgttttttga-cgagtagt----aattgattaataat-cttgcttgtttttgtagCTTGCAAATATAATGGGTCGTTTCCTGTGGCTGACATGTCCCAGAGAG
               ||| |  | |||  | |  | |||  |   || | |   | |   |  |    ||    |  | ||| |   ||||||  || ||||||||||||| ||||||||||| | |||||| |||||||| ||  ||
tagggatgtgctctggtaggtctttttgtttgtttcatatttggttgctatgcaagcacatcattctaaacccttgtacaataccaacttgttcatgcagCTTGCAAATATCATGGGTCGTTTTCAGTGGCTAACATGTCCAAGGAAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtatatgttttttgacgagtagtaattgattaataatcttgcttgtttttgtagCTTGCAAATATAATGGGTCGTTTCCTGTGGCTGACATGTCCCAGAGAG
                            gattaat  putative branch site (score: 3)
                                     tcttgcttgttttt  putative PPT
                    tagtaattgattaata  TA-rich tract