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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctcttgatcttctaatgtctgaatcttttttccatctgctctaaacatcttgacccttcattttgctagccagcagaatgtgacaaaagttttgattagtcaagtaattattgtacccttcttaatgatcggatgattggctgcagGTTTAATGGTGCTCTATCCCTTGAACTCTCAAATGACCATCCAAATAGGCGTATCATCCACCGAAAAGTTGCTATGATATTGGGACATTGGGTTTCGGAG

Basic information

species Arabidopsis thaliana
transcript AT3G08960.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G08960.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA16G19490.1 (Glycine max), 3'ss of exon 11
gtatgctcttgatcttctaatgtctgaatcttttttccatctgctctaaacatcttgacccttcattttgctagccagcagaatgtgacaaaagttttgattagtca--agtaattattgtacccttcttaatgatcggatgattggctgcagGTTTAATGGTGCTCTATCCCTTGAACTCTCAAATGACCATCCAAATAGGCGTATCATCCACCGAAAAGTTGCTATGATATTGGGACATTGGGTTTCGGAG
                                                 || | || ||  |  |  |   |       |   |  |||     ||||| || |     | |   | ||  | |  ||| | | ||       |    |||||||||||||||||| |||| || |||||||||||||| |||||||||  ||||||||| || || ||||||||||| || ||||| ||             
-------------------------------------------------acgtattaactatcaaaatatttttttgata---ttggacccttcttttgtttggctgtcactggattttaaagcactctgact-attaatcattcatttgcagGTTTAATGGTGCTTTATCACTCGAACTCTCAAATGAACATCCAAATTTGCGTATCATTCATCGTAAAGTTGCTATAATTTTGGGGCA-------------

upper sequence: AT3G08960.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA07G18530.1 (Glycine max), 3'ss of exon 9
gtatgctcttgatcttctaatgtctgaatcttttttccatctgctctaaacatcttgacccttcattttgctagccagcagaatgtgacaaaagttttgattagtcaagtaattattgtacccttcttaatgatcggatgattggctgcagGTTTAATGGTGCTCTATCCCTTGAACTCTCAAATGACCATCCAAATAGGCGTATCATCCACCGAAAAGTTGCTATGATATTGGGACATTGGGTTTCGGAG
                                          |   |||  |||   |   ||  ||||| ||       | |     |    |||||| |    |  |   |||  | || ||   || | |||      |    |||||||||||||||||| |||| || |||||||||||||| |||||||||  ||||||||| || || ||||||||||| || ||||| ||             
----------------------------------------acgtattaactatcaaaatattt--ttttgatatt-----ggacccttcttttgttttgctgtcactggattttaaagcactctgactattaatcat----tcatttgcagGTTTAATGGTGCTTTATCACTCGAACTCTCAAATGAACATCCAAATTTGCGTATCATTCATCGTAAAGTTGCTATAATTTTGGGGCA-------------

upper sequence: AT3G08960.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA18G43420.1 (Glycine max), 3'ss of exon 9
gtatgctcttgatcttctaatgtctgaatcttttttccatctgctctaaacatcttgacccttcattttgctagccagcagaatgtgacaaaagttttgattagtcaagtaattattgtacccttcttaatgatcggatgattggctgcagGTTTAATGGTGCTCTATCCCTTGAACTCTCAAATGACCATCCAAATAGGCGTATCATCCACCGAAAAGTTGCTATGATATTGGGACATTGGGTTTCGGAG
                           ||    | |  |  |  | |    |||||   || |  ||||| ||| |       |||  |   | |||  | || ||   | | ||||           ||  ||   |  |||   |||||||||||||||||| |||| || |||||||||||||| |||||||||  ||||||||| || || ||||||||| | || ||||| ||             
---------------------------attaactattaaaatatttttttgatcttagacccttcttttgttaggc-------tgtcgctggattttaaagtactc---tgactatt-----------aactattaaaatatt---tgcagGTTTAATGGTGCTTTATCACTCGAACTCTCAAATGAACATCCAAATTTGCGTATCATTCATCGTAAAGTTGCTGTAATTTTGGGGCA-------------

upper sequence: AT3G08960.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv08s0217g00040.t01 (Vitis vinifera), 3'ss of exon 1
gtatgctcttgatcttctaatgtctgaatcttttttccatctgctctaaacatcttgacccttcattttgctagccag--cagaatgtgacaaaagttttgattagtcaagtaattat-tgtacccttcttaatgatcggatgattggctgcagGTTTAATGGTGCTCTATCCCTTGAACTCTCAAATGACCATCCAAATAGGCGTATCATCCACCGAAAAGTTGCTATGATATTGGGACATTGGGTTTCGGAG
                                                           | || |  || | |    |  |  | | ||  |  |  |||  |  || | ||  | |  |||      |       |   |  ||||  |||||||||||||||||| ||||  | ||||| |||||||| |||||||||| ||| |||||||| || ||||| ||  ||||| |||| || |||||||| |||
------------------------------------------------------ggaggcatttacattaccaaatggggctaattatgtgattatgtttcctatgtaatgtggtgacctgtgattccccacccacttaaactattgtttgcagGTTTAATGGTGCTTTATCTTTGGAACTGTCAAATGATCATCCAAATATGCGCATCATCCATCGGAAAGTGGCACTGATACTGGGGCAATGGGTTTCTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgattagtcaagtaattattgtacccttcttaatgatcggatgattggctgcagGTTTAATGGTGCTCTATCCCTTGAACTCTCAAATGACCATCCAAATAGGCGTATCATCCACCGAAAAGTTGCTATGATATTGGGACATTGGGTTTCGGAG
                            tcttaat  putative branch site (score: 3)
          aagtaattattgta  TA-rich tract