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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcattatatgactattatttgtaataatctcagtttatcaatttatgaactaacacaaaatgaatttgctggtggcacattataagGTGTTAGAAGCTGTTATGATGAAGGAAAACGTGTTGCCGAGACTCTTATGTTTGATTACCATAGGCAACATGGGATTG

Basic information

species Arabidopsis thaliana
transcript AT2G28760.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA13G40960.1 (Glycine max), 3'ss of exon 8
-----------------------------------------------------------------------gtaagtcattatatgactattatttgtaataatctcagtttatcaatttatgaactaacacaaaatgaatttgctggtggcacattataagGTGTTAGAAGCTGTTATGATGAAGGAAAACGTGTTGCCGAGACTCTTATGTTTGATTACCATAGGCAACATGGGATTG
                                                                         ||    | || | ||    || | |       |   |  ||  ||| || ||     | |    ||| ||     |   | | ||| ||| ||| | || || |||||||| || ||||| || ||||||||  | |||||||||||||||||||| ||||||||||
gtaggttccttcatttcattctcaacttgctaaagagcttcttaaatggaactatttctgtcaatatgactacaaactctaatttaacggagatatatgtatcctttgatacat--attcataaagatgtagactgagaacttaaatatatgataatatcagGAGTTCGTAGTTGCTATGATGAGGGGAAACGGGTGGCCGAGACATTGATGTTTGATTACCATAGGCAGCATGGGATTG

upper sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA11G15010.1 (Glycine max), 3'ss of exon 7
gtaagtcattata-tgactattatttgtaata-atctcagtttatcaatttatgaactaacacaaaatgaatttgctggtggca--------cattataagGTGTTAGAAGCTGTTATGATGAAGGAAAACGTGTTGCCGAGACTCTTATGTTTGATTACCATAGGCAACATGGGATTG
 || |   ||  | |||| ||    | ||||| ||  ||  | || |  |  || | |    |   || |||   ||      |         || |  ||| ||| | || ||||||||||| || || |||||||| || ||| | ||||||||||| |||||||| ||||| || |
-taggaatttggaatgaccatcgactttaatatataccatatcattatctcttggaatgttgctttatcaatagcctaaacataaaaatatgtatgaacagGAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCG

upper sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 3'ss of exon 7
gtaagtcattatatgactattatttgtaataatctcagtttatc-----aatttatgaa---ctaacacaa--aatgaatttgctggtggcacattataagGTGTTAGAAGCTGTTATGATGAAGGAAAACGTGTTGCCGAGACTCTTATGTTTGATTACCATAGGCAACATGGGATTG
  |     |||     || |   || ||| | |       | ||     || ||||||     || |||    | ||||  |  |        | |   ||||||  | ||||| |||||||| || || ||||| || |||||| | ||||||||||| ||||||||||||||||| |
-aatactgttactcttctttctcttttaaaattgaagacatgtcttgagaaattatgagaatttagcaccctcactgaagatagtctcacttgacttacagGTGTGCGGAGCTGCTATGATGAGGGGAAGCGTGTGGCTGAGACTTTGATGTTTGATTATCATAGGCAACATGGGATAG

upper sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S189_118V6.1 (Physcomitrella patens), 3'ss of exon 7
------gtaagtca--ttatatgactattat-ttgtaataatct---cagtttatcaattt---------atgaactaacacaaaatg--aatttgctggtggcacat----tata-agGTGTTAGAAGCTGTTATGATGAAGGAAAACGTGTTGCCGAGACTCTTATGTTTGATTACCATAGGCAACATGGGATTG
        || |||  ||| | |  |  |      | |   |||   |||||| | || |          || |    |||||||||   |  ||   | ||   | |    | |  ||| || |||||||| ||||| || ||||| |||||||| ||||||||||||||||| ||||||||||| |||||  |||
gtaaatccaactcacgttacacgcttggtgcaccatcacgctctgtgcagtttctgaactctgatacacaatcattctacacaaaatattaccttaacgttgcttcttgtcttgtgtagGAGTAAGAAGCTGCTATGACGAGGGAAAGCGTGTTGCTGAGACTCTTATGTTTGACTACCATAGGCAGCATGGCGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtttatcaatttatgaactaacacaaaatgaatttgctggtggcacattataagGTGTTAGAAGCTGTTATGATGAAGGAAAACGTGTTGCCGAGACTCTTATGTTTGATTACCATAGGCAACATGGGATTG
                aactaac  putative branch site (score: 1)
        aatttatgaactaa  TA-rich tract