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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttcctgagcaaaagggttggttatgtgatttttgctttgtttactcattaggtttattggctttctaaattttgtgaaaccgtcaacacatttctttcccgtttgcagTTGTGGCAGATACATGTAGCTGAGCAAATGATTTTGGGTGATTACGAAGCTAACCCTGCAAAATACGAAGGCAAAAAGCTATCAGAATTATCTGATGATG

Basic information

species Arabidopsis thaliana
transcript AT3G48500.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G48500.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA06G18080.1 (Glycine max), 3'ss of exon 8
gtattttcctgagcaaaagggttggt-tatgtgatttttgctttgtttactcattaggtttattggctttctaaattttg-tgaaaccgtcaacacatttct--ttcccgtttgcagTTGTGGCAGATACATGTAGCTGAGCAAATGATTTTGGGTGATTACGAAGCTAACCCTGCAAAATACGAAGGCAAAAAGCTATCAGAATTATCTGATGATG
              || |   ||  |  |  | | || ||   || | |  | |||  || |    ||||   | |||||     | | |||     || ||   |    ||||||||||||||| ||  |||||||||||||||||||||||| ||||   | |  ||| ||||  ||||| ||||||||||| || ||||| ||   |||||| |
--------------aacaacattcatacagataaattgtgtactggtaaaac-ttaacttga--aacttttagacttttggcatgagcctcagtgagttactgcctttattttgcagTTGTGGCAAATTAATGTAGCTGAGCAAATGATTTTGGATGATATGGCAATTAATCCTGATAAATATGAAGGCAAAAAACTGTCAGATTTGGTTGATGAAG

upper sequence: AT3G48500.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA04G36900.1 (Glycine max), 3'ss of exon 9
gtattttcctgagcaaaagggttggttatgtgatttttgctttgtttactcattaggtttatt---ggctttctaaatttt--gtgaaaccgtcaacacatttct--ttcccgtttgcagTTGTGGCAGATACATGTAGCTGAGCAAATGATTTTGGGTGATTACGAAGCTAACCCTGCAAAATACGAAGGCAAAAAGCTATCAGAATTATCTGATGATG
                 |       | ||  || |      |||| | ||  | |   |||         ||||| | |||  |    | | |||     || ||   |    ||||||||||||||| ||  |||||||||||||||||||||| | ||||   | |  ||| ||||  ||||| |||||||||||||| ||||| ||   |||||| |
-----------------aacaacattcatacgaat---aaattgtctgctggtaaaacttaactagaaacttctagacttttggcatgaacctcagtgagttactgcctttattttgcagTTGTGGCAAATTAATGTAGCTGAGCAAATGATTTTAGATGATATGGCAATTAATCCTGATAAATATGAAGGCAAAAAGCTGTCAGATTTGGTTGATGAAG

upper sequence: AT3G48500.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv17s0000g01850.t01 (Vitis vinifera), 3'ss of exon 8
gtattttcctgagcaaaagggttggttatgtgatttttgctttgtttactcattaggtttattggctttctaaattttgtgaaaccgtcaacacatttctttcccgtttgcagTTGTGGCAGATACATGTAGCTGAGCAAATGATTTTGGGTGATTACGAAGCTAACCCTGCAAAATACGAAGGCAAAAAGCTATCAGAATTATCTGATGATG
 || | || |    | | ||  | ||  |         ||| | |  | ||| ||     |  ||| ||    |||      ||  |||  ||  ||| | | |  |  |||||| |||||||| ||||| ||||||||||||||||||| ||||   || | ||| |||   ||||| || |||||||||||  |||| ||| |||||||||
-taatatcattgttacatgg--tagtctttcaccaggggctatatagaatcaataatacaagcggccttt--gatt------aattgtctgcatttttatatgctat--gcagTTATGGCAGATCCATGTTGCTGAGCAAATGATTTTGGATGATATGGAGGTTAATCCTCATAAATATGAGGGCAAAAAGCTGACAGAGTTAACTGATGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattggctttctaaattttgtgaaaccgtcaacacatttctttcccgtttgcagTTGTGGCAGATACATGTAGCTGAGCAAATGATTTTGGGTGATTACGAAGCTAACCCTGCAAAATACGAAGGCAAAAAGCTATCAGAATTATCTGATGATG
         ttctaaa  putative branch site (score: 2)
                                   catttctttcccgttt  putative PPT
        tttctaaattttgt  TA-rich tract