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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaacttcaaacagtatcctgtagtatcaaggtgatgaaaaatattttgagattgacgcattttttgctatttgtctggtgcagTTCCACATTTTGAGAAAATGCTGTATGATCAAGGGCAACTAGCTAATGTGTACCTCGACGGTTTTAGCATTACCAAGGACGTTATGTATTCTTATGTGGC

Basic information

species Arabidopsis thaliana
transcript AT4G03200.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G03200.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA19G39560.2 (Glycine max), 3'ss of exon 8
--------------------------------------------------------------------------------------------------------gtaaaacttcaaacagtatcctgtagtatcaagg------tgatgaaaaatattttgagattgacgcattttttg--ctatttgtctggtgcagTTCCACATTTTGAGAAAATGCTGTATGATCAAGGGCAACTAGCTAATGTGTACCTCGACGGTTTTAGCATTACCAAGGACGTTATGTATTCTTATGTGGC
                                                                                                        |  |   |    |   | | ||||  |||| |        || |  |||||||| | |   |||   |||| |||  || ||       ||||||||||||||||||||| ||||| |||||||||||||| || |||||||| || || || |  |||   || || || ||     | ||||| ||| |  |
gtaagtttaccttgggcagcagtcatttctttgagtatatatttgatatgttatatgtatgagttgtaattctcaatatgaaaatacctgagcattttgatttggccatgttaattaggatgtgctgttatatccaatgctctttgttttaaaatattgtaaagatgattgatttgttgagctgttatatctttgcagTTCCACATTTTGAGAAGATGCTTTATGATCAAGGGCAGCTTGCTAATGTTTATCTAGATGCGTTTTCTATCACAAAAGATACCTTTTATTCATATATATC

upper sequence: AT4G03200.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA03G36910.1 (Glycine max), 3'ss of exon 8
-------------------------------------------------------------------------------------------------------gtaaaacttcaaacagtatcctgtagtatcaaggtgatg-------aaaaatattttgagattgacgcattttttg--ctatttgtctggtgcagTTCCACATTTTGAGAAAATGCTGTATGATCAAGGGCAACTAGCTAATGTGTACCTCGACGGTTTTAGCATTACCAAGGACGTTATGTATTCTTATGTGGC
                                                                                                       |  |   |    ||| | |  |||  |||| |  || |          |||| || | |     |   |||| |||  || ||       || |||||| ||||||||||| ||||| |||||||||||||| || || ||||| || || || |  |||   || || || ||     | ||||||||| |  |
gtaagtttaacttgggcagcagtcatttctttgagtatatatttgatatgtacgtgtatcagctgtaattctcaatatgcaaatacctgagcattttgatttggccatgttaattacaatgtgttgttatatccaaatgctctttgttttgaaatgttgtaaagacaattaatttgttgggctgttatatctttgtagTTCCGCATTTTGAGAAGATGCTTTATGATCAAGGGCAGCTTGCCAATGTTTATCTGGATGCGTTTTCTATCACAAAAGATACCTTTTATTCTTATATATC

upper sequence: AT4G03200.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv07s0104g01480.t01 (Vitis vinifera), 3'ss of exon 8
-----------------gtaaaacttcaaacagtatcctgtagtatcaaggtgatgaaaaatattttgagattgacgcattttttgctatttgtctggtgcagTTCCACATTTTGAGAAAATGCTGTATGATCAAGGGCAACTAGCTAATGTGTACCTCGACGGTTTTAGCATTACCAAGGACGTTATGTATTCTTATGTGGC
                 ||   |   |   |  |   |||||| ||  |  | |||   | | ||||| |||    ||  |    | |  |  |||| ||||||||||||||||||||||||| | ||||| || ||||| || |||||||  || || || | ||||  ||| || || || ||  | ||||| | |||| |
cttcctttctcatttttgttggataactggctttgctctgtagcatttatct-atggttattgttttgtgataatagc--taaaggttggtgttctgttgcagTTCCACATTTTGAGAAAATGTTATATGACCAGGGGCAGCTCGCTAATGCTTATCTAGATGTTTTTTCCATCACAAAAGATGTCTTCTATTCATGTGTGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggtgatgaaaaatattttgagattgacgcattttttgctatttgtctggtgcagTTCCACATTTTGAGAAAATGCTGTATGATCAAGGGCAACTAGCTAATGTGTACCTCGACGGTTTTAGCATTACCAAGGACGTTATGTATTCTTATGTGGC
                     gattgac  putative branch site (score: 3)
                                         tttgtct  putative PPT
        aaaaatattttgagat  TA-rich tract