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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatattatttttctcgtttaaactttaaaggctgatctggttttattaaaaaaataaaagaacgcactcatttagctttattcatatgataatttttcagGTCAGAAGCCAAGGATTTGTTAGGCGATGATTGGGTTCAAAGACATAGGCGTATCGTGCAGCAACATGCAAACCAATACAAAAGAGTTGCCTGGACAAAG

Basic information

species Arabidopsis thaliana
transcript AT5G03540.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G03540.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA20G33590.1 (Glycine max), 3'ss of exon 8
-----------------gtatattatttttctcg--tttaaactttaaaggctgatctggttttattaaaaaaataaaagaacgcactcat-----ttagctttattcatatgataatttt---tcagGTCAGAAGCCAAGGATTTGTTAGGCGATGATTGGGTTCAAAGACATAGGCGTATCGTGCAGCAACATGCAAACCAATACAAAAGAGTTGCCTGGACAAAG
                 |  |||||||||  | |  |   |  ||||  |  |  | ||||  |   ||   | |       | |||| |      |||  |||  || ||      ||||   | ||||| ||||||||||||||| | || ||||||||||| ||| |||||||| | || |||||||| |||||||| ||||||||||||  ||| ||| |||||
gtatgtcttcatgttttggttattattttctttgaatcatagttttattgtatattttggtggttcaaagtcagttttcctcctcacttaaaaaagttacttttcctcctaatcctcttttatcttagGTCTGAAGCCAAGGATTTGCTGGGGGATGATTGGGTACAACGACATAGGAGGATTGTGCAGCAGCATGCAAATCAATACAAAAGAAATGCTTGGGCAAAG

upper sequence: AT5G03540.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA10G34000.1 (Glycine max), 3'ss of exon 8
----------------------------------gtatattatttttctcgtttaaactttaaaggct--gatctggttttattaaaaaaataaaagaacgcactcatttagctttattcatatgataatttttcagGTCAGAAGCCAAGGATTTGTTAGGCGATGATTGGGTTCAAAGACATAGGCGTATCGTGCAGCAACATGCAAACCAATACAAAAGAGTTGCCTGGACAAAG
                                   |  || ||  || |  |  | | ||| | || |   |    |||||  |    |  ||||| ||   | ||  ||  | |   | ||    |  | ||| ||||| ||||||||||||||  | || ||||||||||| ||| |||||||| | || |||||||| |||||||| ||||||||||||  ||| ||| |||||
gtatgtctttgacatgttttggttactattttctttgaatcatcattttattgcatattttgatggttcaaaatcagttttcctcctcacttaaaaaaaaaaagtcccttttcctc-ctaatcctcttctattttagGTCTGAAGCCAAGGATTTACTGGGGGATGATTGGGTACAACGACATAGGAGGATTGTGCAGCAGCATGCAAATCAATACAAAAGAAATGCTTGGGCAAAG

upper sequence: AT5G03540.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv13s0073g00170.t01 (Vitis vinifera), 3'ss of exon 8
gtatattatttttctcgtttaaactttaaaggctgatctggttttattaaaaaaataaaaga-acgcac-tcatt--tagctttattcatatgataatttttcagGTCAGAAGCCAAGGATTTGTTAGGCGATGATTGGGTTCAAAGACATAGGCGTATCGTGCAGCAACATGCAAACCAATACAAAAGAGTTGCCTGGACAAAG
   | |  || |   | | |  ||||  ||   |  | | |   | ||| ||   |       | |||  ||| |  |||   | || || || |   |||||||||| |||||||| ||||| ||||| ||||||||||| ||||||||| |  | || |||||||| |||||||| || ||||| ||   ||||||| |||||
--gtttgtttctagacttctgtacttccaaacttccttttgaaatgttataagtttgtcttccatgcagatcactgatagtgcttttgatgtgttg--ttttcagGTCTGAAGCCAAAGATTTATTAGGGGATGATTGGGTGCAAAGACATCGAAGGATTGTGCAGCAGCATGCAAATCAGTACAAGAGGAATGCCTGGGCAAAG

upper sequence: AT5G03540.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: PP1S39_74V6.1 (Physcomitrella patens), 3'ss of exon 8
----gtat-attatttttctcgtttaaac--tttaaaggctgatctggttttattaaaaaaataaaagaacgcactcatttagctttattcatatgataat--ttttcagGTCAGAAGCCAAGGATTTGTTAGGCGATGATTGGGTTCAAAGACATAGGCGTATCGTGCAGCAACATGCAAACCAATACAAAAGAGTTGCCTGGACAAAG
    | || ||||||   |  |  | |||   ||| | |  ||  | |    || ||    ||   |    ||       |      ||| | ||| ||||   | |||| ||||| || || ||  |  | |||||||| ||||||||||||||  | ||||| || |||||||||||||||  |||  |  | | |||||||   |||
attcgcatcattattggacctggatgaacatcttagaaggcgaattagc---atcaatcccatttgaatttgc-------tgctcacattgacatggtaatggctatcagATCAGAGGCAAAAGACCTACTGGGCGATGACTGGGTTCAAAGACAACGACGTATTGTCCAGCAACATGCAAACACATATCAGCGTGCTGCCTGGGGCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaaaaaaataaaagaacgcactcatttagctttattcatatgataatttttcagGTCAGAAGCCAAGGATTTGTTAGGCGATGATTGGGTTCAAAGACATAGGCGTATCGTGCAGCAACATGCAAACCAATACAAAAGAGTTGCCTGGACAAAG
                                               tttttc  CT-rich tract
                        atttagctttattcat  TA-rich tract