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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttcttcacctcactgcactttcctttcccttcaatatcccttgttaatgtgtcacgaacctttgtccttgttttgttctcggcgtttccagGATTATGATCCATCTGAAGAGAATCCAGGAACTGCTCCGTTTAGTGAGCCCGAAACTCAAATAATGCGGAAGCTAGCCATATCATTTGATCCTCACATAT

Basic information

species Arabidopsis thaliana
transcript AT5G42320.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G42320.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA06G02070.1 (Glycine max), 3'ss of exon 5
gtacttcttcacctcactgcactttcctttcccttcaa------tatcccttgtt-aatgtgtc-acgaacctttgtccttgttttgttctcggcg--tttccagGATTATGATCCATCTGAAGAGAATCCAGGAACTGCTCCGTTTAGTGAGCCCGAAACTCAAATAATGCGGAAGCTAGCCATATCATTTGATCCTCACATAT
       |  |       ||||| |  | ||  ||| |      ||||   |||| ||| | |  | | | || | |     |||  || |   |   |    ||||||||||||||| ||| |||||||| |||| |||||| || |||||||| |||| |||||| |||||||| || |||||||| ||||| || ||  |||
-----agtgtatggtgtggcactcttttatcttttcgagaaatatatcaaatgtttaatattttgaagcatctctttttcattttcattattcacaaataaatagGATTATGATCCATATGAGGAGAATCCTGGAATTGCTCCATTCAGTGAGCCTGAAAGTCAAATTATGCGGAAACTTGCCATATCTTTTGAACCACATCTAT

upper sequence: AT5G42320.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv18s0122g01410.t01 (Vitis vinifera), 3'ss of exon 6
-gtacttcttcacctcactgcactttcctttcccttcaata----tcccttgttaatgtgtcacgaacctttgtccttgttttgttctcggcgtttccagGATTATGATCCATCTGAAGAGAATCCAGGAACTGCTCCGTTTAGTGAGCCCGAAACTCAAATAATGCGGAAGCTAGCCATATCATTTGATCCTCACATAT
  |   |    |  ||| ||   | |  |||         |    ||| || ||  | | | |  |     | |   | | |     ||     ||  ||||||||||||||| |||||| ||||| ||||||||||| ||||||||||| || ||||||||||||||||| ||  |||||||||||||||| || ||||
gttgtattgcaaattcagtgttatgttgtttggtggtgggacttttccgttctttttcttttatcatttaatttttctatctctgattctttaattatagGATTATGATCCATATGAAGAAAATCCTGGAACTGCTCCTTTTAGTGAGCCTGAGACTCAAATAATGCGGAAACTCTCCATATCATTTGATCCACATATAT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcccttgttaatgtgtcacgaacctttgtccttgttttgttctcggcgtttccagGATTATGATCCATCTGAAGAGAATCCAGGAACTGCTCCGTTTAGTGAGCCCGAAACTCAAATAATGCGGAAGCTAGCCATATCATTTGATCCTCACATAT
     tgttaat  putative branch site (score: 3)
                                              cgtttcc  putative PPT
     tgttaat  TA-rich tract