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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatattcatcgcattatacaccaactttctcttccataaattaatcaggttttaaagcagacatgtcatatctagGTTGCCTTGAACATGCTGCGGGAGGAAGGAGTTGCATCATTCTACAACGGTCTAGGTCCTTCGCTTTTAAGTATAGCTCCTTACATTGCCATCAACTTCT

Basic information

species Arabidopsis thaliana
transcript AT5G01500.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G01500.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA01G28890.1 (Glycine max), 3'ss of exon 4
gtatattcatcgcattatacaccaactttctcttccataaattaatcaggttttaaagca-gacatgtcatatctagGTTGCCTTGAACATGCTGCGGGAGGAAGGAGTTGCATCATTCTACAACGGTCTAGGTCCTTCGCTTTTAAGTATAGCTCCTTACATTGCCATCAACTTCT
||||||  || |   | |     |  ||| |   | | |  || ||| | |  | || || |  ||| | | ||||||||||||||| ||||||  | ||||||||| ||||||| |||||| | || || || ||||| ||  |  | |||||||| || |||||  | ||||| |
gtatataaattgacgttt---ttaggttttttcactagatcttcatctgctaatgaaccatgttatggcttttctagGTTGCCTTGAGCATGCTAAGAGAGGAAGGATTTGCATCTTTCTACTATGGCCTTGGGCCTTCTCTGATTGGAATAGCTCCATATATTGCAGTGAACTTTT

upper sequence: AT5G01500.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv08s0007g02230.t01 (Vitis vinifera), 3'ss of exon 6
gtatattcatcgcattatacaccaactttctcttccataaat-taatcaggttttaaagcagacatgtcata--tctagGTTGCCTTGAACATGCTGCGGGAGGAAGGAGTTGCATCATTCTACAACGGTCTAGGTCCTTCGCTTTTAAGTATAGCTCCTTACATTGCCATCAACTTCT
||||  ||| |  |||  | |     ||| |       |    |  | | ||    | |||   |||   |   |  |||||||||| ||||| ||  | ||||||||||||||||| ||||| || ||||| || ||||| ||| |  | ||||| |||||||||||  | ||||| |
gtatgatcaactgatt-cagattgtgtttatggcaagaaggccttgttatgtgaagatgcatttatgagctgatttcagGTTGCCTTAAACATACTAAGAGAGGAAGGAGTTGCATCCTTCTATAAGGGTCTTGGACCTTCTCTTCTTGGAATAGCACCTTACATTGCTGTGAACTTTT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaactttctcttccataaattaatcaggttttaaagcagacatgtcatatctagGTTGCCTTGAACATGCTGCGGGAGGAAGGAGTTGCATCATTCTACAACGGTCTAGGTCCTTCGCTTTTAAGTATAGCTCCTTACATTGCCATCAACTTCT
                  aattaat  putative branch site (score: 3)
               ataaattaatcaggtt  TA-rich tract