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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagttgtataatatggttctctatacttagggctgtaacctttctttggtggtcacactatcgttttactttatttgaaaggcttttgcatttgactcttaccatacaccatgctctgaatctttagagttccaggttcaaacatattgatggcatgtcattattttgtttcagGATCTTCCTAATTATGCTCAGCATACTGTTCCTATATTTTCACTTCCCCAAGAGTGGTTGTGGTGTGAATCCTGGTGTGGAAACGCCACAAAAGCCAAGG

Basic information

species Arabidopsis thaliana
transcript AT1G71220.2
intron # 35
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G71220.2 (Arabidopsis thaliana), 3'ss of exon 35
lower sequence: LOC_Os02g44510.1 (Oryza sativa), 3'ss of exon 15
gcaagttgtataatatggttctctatacttagggctgtaacctttctttggtggtcacactatcgttttactttatttgaaaggcttttgcatttgactcttaccatacaccatgctctgaatctttagagttccaggttcaaacatat-----tgatggcatgtcattattttgt-ttcagGATCTTCCTAATTATGCTCAGCATACTGTTCCTATATTTTCACTTCCCCAAGAGTGGTTGTGGTGTGAATCCTGGTGTGGAAACGCCACAAAAGCCAAGG
                                                                               | | ||| | |  |       |||  ||  |  |  ||    |  |  ||  || ||| |   ||||| |     || |  | ||  |    ||| | |||||||||| || |||||||||||||||||||| || ||||| || || || ||||| ||| | ||||||||||| ||||||||||| |||||||| || |  |
-------------------------------------------------------------------------------acatgctgtggtgtgcagagatta--atggaagaaactacacaaatgcagt-ttacagatgtgaacatgtgtgaatgcttacttgcaacacctttatattcagGATCTCCCAAATTATGCTCAGCATACTGTGCCCATATTCTCTCTCCCTCAAGAATGGCTATGGTGTGAATCTTGGTGTGGAAATGCCACAAAGGCAAGAG

upper sequence: AT1G71220.2 (Arabidopsis thaliana), 3'ss of exon 35
lower sequence: GRMZM5G846198_T01 (Zea mays), 3'ss of exon 8
gcaagttgtataatatggttctctatacttagggctgtaacctttctttggtggtcacactatcgttttactttatttgaaaggcttttgcatttgactcttaccatacaccatgctctgaatctttagagttccaggttcaaacatattgatggcatgtcattattttgtttcagGATCTTCCTAATTATGCTCAGCATACTGTTCCTATATTTTCACTTCCCCAAGAGTGGTTGTGGTGTGAATCCTGGTGTGGAAACGCCACAAAAGCCAAGG
                                                                          |||||||     | |   |||      |  |||    |||  | |   ||| || |  |  | |||  ||    |   ||| |   ||||| | |   ||||||||| || |||||||| || ||||| || |||||||| || ||||| ||||| ||| ||||||||||||| ||||||||||| ||||||||||| |  |
-----------------------------------------------------------------------gacatttgaagattctgttttttttttctgtttcatgttacataat-tatttctgtataaatggatgttgcaatgcttacttggaaca-cattaatat---tcagGATCTCCCGAATTATGCCCAACATACGGTGCCTATATTCTCTCTTCCTCAAGAATGGCTGTGGTGTGAATCTTGGTGTGGAAATGCCACAAAAGCAAGAG

upper sequence: AT1G71220.2 (Arabidopsis thaliana), 3'ss of exon 35
lower sequence: GLYMA08G13400.1 (Glycine max), 3'ss of exon 38
gcaagttgtataatatggttctctatacttagggctgtaacctttctttggtggtcacactatcgttttactttatttgaaaggcttttgcatttgactcttaccatacaccatgctctgaatctttagagttccaggttcaaacatattgatggcatgtcattattttgtttcagGATCTTCCTAATTATGCTCAGCATACTGTTCCTATATTTTCACTTCCCCAAGAGTGGTTGTGGTGTGAATCCTGGTGTGGAAACGCCACAAAAGCCAAGG
                                                                |||  | |||||||   |   ||   | | || || ||     |   |||| | |   | ||    |||  |||| |     |  | |     || |  ||  | || | |||||||||||||||||||||||||||| || ||||| || ||  | || ||||||||| | ||||||||||| |||||||| || || ||||||  |||||
----------------------------------------------------------------gttccaatttatttccca---ttaaccttctgtcttttg----aatgcatgtttttgttatt---ggtttgaggtgcctttttgctaa-aatttgcccctaaatggtct-agGATCTTCCTAATTATGCTCAGCATACCGTGCCTATTTTCTCTTTGCCACAAGAGTGGCTATGGTGTGAATCATGGTGTGGTAATGCTACAAAATACAAGG

upper sequence: AT1G71220.2 (Arabidopsis thaliana), 3'ss of exon 35
lower sequence: GLYMA08G20020.1 (Glycine max), 3'ss of exon 35
gcaagttgtataatatggttctctatacttagggctgtaacctttctttggtggtcacactatcgttttactttatttgaaaggcttttgcatttgactcttaccatacaccatgctctgaatctttagagttccaggttcaaacatattgatggcatgtcattattttgtttcagGATCTTCCTAATTATGCTCAGCATACTGTTCCTATATTTTCACTTCCCCAAGAGTGGTTGTGGTGTGAATCCTGGTGTGGAAACGCCACAAAAGCCAAGG
                                                                       |||| ||  || | |    | | |  | |||    || | |||  | |   | ||| |  ||       |  || | | | ||  || |   |    || |||||||||||||||||||||||||||||| |||||| || || || || || ||||| ||| | |||||||| || |||||||| || || |||||| | ||||
-----------------------------------------------------------------------tttacttctaatg-tagcacctgttgcccttggtgtatatcatttttttttttttttgttttttga---cggacct-tagctgaaatttgcattcaatggttcagGATCTTCCTAATTATGCTCAGCATATTGTTCCCATTTTCTCTCTGCCACAAGAATGGCTTTGGTGTGAGTCATGGTGTGGTAATGCTACAAAATCAAAGG

upper sequence: AT1G71220.2 (Arabidopsis thaliana), 3'ss of exon 35
lower sequence: GLYMA05G30230.1 (Glycine max), 3'ss of exon 36
gcaagttgtataatatggttctctatacttagggctgtaacctttctttggtggtcacactatcgttttactttatttgaaaggcttttgcatttgactcttaccatacac---catgctctgaatctttagagttccaggttcaaacatattgatggcatgt-cattattttgtttcagGATCTTCCTAATTATGCTCAGCATACTGTTCCTATATTTTCACTTCCCCAAGAGTGGTTGTGGTGTGAATCCTGGTGTGGAAACGCCACAAAAGCCAAGG
                                                                           ||  || |  |||  |||| | ||  |  | |       |||||| |  || ||    |||  |||| |   | | ||| |   || | |  |    || |  |||||||||||||||||||||||||||| || || || || ||  | || ||||||||| | ||||||||||| |||||||| || || ||||||  |||||
--------------------------------------------------------------------------cttccaatgtatttcccattagccttctctcttttgaatgcatgcttttgatttt---ggtttgaggtgc---ctttttgctaaaattttccctgaaatggtctagGATCTTCCTAATTATGCTCAGCATACCGTGCCAATTTTCTCTTTGCCGCAAGAGTGGCTATGGTGTGAATCATGGTGTGGTAATGCTACAAAATACAAGG

upper sequence: AT1G71220.2 (Arabidopsis thaliana), 3'ss of exon 35
lower sequence: Vv12s0034g02230.t01 (Vitis vinifera), 3'ss of exon 36
gcaagttgtataatatggttctctatacttagggctgtaacctttctttggtggtcacactatcgttttactttatttgaaaggcttttgcatttgactcttaccatacaccatgctctgaatctttagagttccaggttcaaacatattgatggcatgtcattattttgtttcagGATCTTCCTAATTATGCTCAGCATACTGTTCCTATATTTTCACTTCCCCAAGAGTGGTTGTGGTGTGAATCCTGGTGTGGAAACGCCACAAAAGCCAAGG
                                                                          || |||| | ||    ||||| | ||||   ||   |  |   ||  ||  |||   || |    | | |   |||| |   ||  |  |      |||||||||||||| || | |||||||||||| || || || ||||||||||||||||||||||| ||||||||||| ||||| ||||| || |||||| ||||||
-----------------------------------------------------------------------aacatctgaatg-ctccatcatttta-tctttttatgttctgtttgcttgattattat--tttccaaataatatgcattgctctgatagccat-ccacatttcagGATCTTCCAAACTTTGCTCAGCATACGGTGCCCATCTTTTCACTTCCCCAAGAGTGGTTATGGTGTGAATCATGGTGCGGAAATGCTACAAAATCCAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctttagagttccaggttcaaacatattgatggcatgtcattattttgtttcagGATCTTCCTAATTATGCTCAGCATACTGTTCCTATATTTTCACTTCCCCAAGAGTGGTTGTGGTGTGAATCCTGGTGTGGAAACGCCACAAAAGCCAAGG
                         tattgat  putative branch site (score: 3)
                                            ttttgtttc  putative PPT
                                      tcattattttgttt  TA-rich tract