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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtattttttttttgtttggaaaaataaaatggcttaattaatggcttaactaattatgtattggaaatttgaaaaaatataatagGGAGATAATGCACGCTATGTGGAAACCGCAAAAGTTCAAGGCGATATATCTACTAGCGACCATATATGTACTAACGCTAACGCTACCATCCGCGTCTGCG

Basic information

species Arabidopsis thaliana
transcript AT1G77690.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G77690.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os10g05690.1 (Oryza sativa), 3'ss of exon 3
--------------gtaagtattttttttttgtttggaaaaataaaatggctta-attaatggcttaactaattatgtattggaaatttgaaaaaatataatagGGAGATAATGCACGCTATGTGGAAACCGCAAAAGTTCAAGGCGATATATCTACTAGCGACCATATATGTACTAACGCTAACGCTACCATCCGCGTCTGCG
              |  ||||  ||  ||||      |||   |||||  |||| | || | |  ||| |||  | ||| |  |    |||||    |    ||||||||||||||||| ||||||   ||||| |||||||||||||| || || || |||||  | || || || ||||| ||||| || || ||||| |||
tatctataaaacttgggagtagattgattttaacc--aaagtcaaaataacttatagtagtag--taattaagaaagtaattaagggatgaaatgcaaatgcagGGAGATAATGCACGCGATGTGGCGGCCGCAGAAGTTCAAGGCGATCTACCTGCTGGCGACGGTGTACGTGCTGACGCTGACGCTGCCGTCGGCGTCGGCG

upper sequence: AT1G77690.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os03g14080.1 (Oryza sativa), 3'ss of exon 5
-------gtaagtattttttttttgtttggaaaaataaaatggcttaattaatggcttaactaattatgtattggaaatttgaaaaaatataat------agGGAGATAATGCACGCTATGTGGAAACCGCAAAAGTTCAAGGCGATATATCTACTAGCGACCATATATGTACTAACGCTAACGCTACCATCCGCGTCTGCG
        |   |  |||      |  |  || | |  |||   | |   ||  |   ||  | || |||      | |  |    | | |  |      |||||||| |||||||| |||||||  ||||| |||||||||||||| || ||  | |||||  | || || || ||||| ||||| || || ||| |    
cagttacatcgatcgtttacagcagcgtc-aatactgtaataattgaccaaactgtcaaagcagtt-tgtgacaacattacgtgtgattttggtgcgcgcagGGAGATCATGCACGCGATGTGGAGGCCGCAGAAGTTCAAGGCGATCTACCTGATGGCGACGCTGTACGTGCTGACGCTGACGCTGCCGTCGGCGGCGAGC

upper sequence: AT1G77690.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G045057_T02 (Zea mays), 3'ss of exon 5
---------------------------------------------gtaagt-attttttttttgtttggaaaaataaaatggcttaatta-atggcttaactaattatgtattggaaatttgaaaaaatataatagGGAGATAATGCACGCTATGTGGAAACCGCAAAAGTTCAAGGCGATATATCTACTAGCGACCATATATGTACTAACGCTAACGCTACCATCCGCGTCTGCG
                                               |||| |  |||   |   ||   |    | |    | ||  ||  ||       | |   ||| |    || | |      |     |||||||| |||||||| |||||||||||||| |||||||||   || || ||  | |||||  | || || || ||||| ||||| || ||||| || || 
gtaagcctcagctgccagcagtctatatctatacccacacacagcagaagtgaagtttaggtcacttcagagttcagagctacgtacgtacgtgatgagtgtcacagtgtgtgtacaaatgggccggttggtgcagGGAGATCATGCACGCGATGTGGAAACCGCACAAGTTCAAGCTCATCTACCTGGTGGCGACGCTGTACGTGCTGACGCTGACGCTGCCGTCCGCCTCCGCC

upper sequence: AT1G77690.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: EFJ34222 (Selaginella moellendorffii), 3'ss of exon 5
gtaagtattttttttttgtttggaaaaataaaatggcttaattaatggcttaactaattatgtattggaaatttgaaaaaatataatagGGAGATAATGCACGCTATGTGGAAACCGCAAAAGTTCAAGGCGATATATCTACTAGCGACCATATATGTACTAACGCTAACGCTACCATCCGCGTCTGCG
|||||   |||   ||  || |      |   |||| |  ||      |||  || ||          || |||||       |   |||||||| |||||||| |||||||| || ||||||||||||  | | |||||  | || ||||| || ||  | ||  | || || || |||||  | || 
gtaagc--tttcgcttctttcgctgttcttgcatggatcgataggcatctt--ctcat---------aaactttgat----cttcccagGGAGATCATGCACGCGATGTGGAAGCCCCAAAAGTTCAAGTGGGTCTATCTCGTCGCTACCATCTACGTCTTCACCTTGACACTCCCGTCCGCCACGGCA

upper sequence: AT1G77690.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: EFJ21839 (Selaginella moellendorffii), 3'ss of exon 5
gtaagtattttttttttgtttggaaaaataaaatggcttaattaatggcttaactaattatgtattggaaatttgaaaaaatataatagGGAGATAATGCACGCTATGTGGAAACCGCAAAAGTTCAAGGCGATATATCTACTAGCGACCATATATGTACTAACGCTAACGCTACCATCCGCGTCTGCG
|||||   |||   ||  || |      |   |||| |  ||        |    |  | |       || |||||       |   |||||||| |||||||| |||||||| || ||||||||||||  | | |||||  | || ||||| || ||  | ||  | || || || |||||  | || 
gtaagc--tttcgcttctttcgctgttcttgcatggatcgataggctatgttgtcatcttttctcataaactttgat----cttcccagGGAGATCATGCACGCGATGTGGAAGCCCCAAAAGTTCAAGTGGGTCTATCTCGTCGCTACCATCTACGTCTTCACCTTGACACTCCCGTCCGCCACGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcttaattaatggcttaactaattatgtattggaaatttgaaaaaatataatagGGAGATAATGCACGCTATGTGGAAACCGCAAAAGTTCAAGGCGATATATCTACTAGCGACCATATATGTACTAACGCTAACGCTACCATCCGCGTCTGCG
                 aactaat  putative branch site (score: 2)
               ttaactaattatgtat  TA-rich tract