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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggaacactagaactatgcatagttattttcagtatttataggtgggatttaactgttgttatatatagGTTATGATTGGCGATTACCTGGGCCAACACGAGGAGTTTCCTCTTGCTGTCATGCATGCATATGTTGATTCAATGAAATTTTCAGAAATGAAGTTTCATT

Basic information

species Arabidopsis thaliana
transcript AT3G43300.1
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: LOC_Os07g37750.1 (Oryza sativa), 3'ss of exon 16
------------------------------------------gtggaacactagaacta-tgcatagttattttcag----tatttataggtgggatttaactgttgtta-tatatagGTTATGATTGGCGATTACCTGGGCCAACACGAGGAGTTTCCTCTTGCTGTCATGCATGCATATGTTGATTCAATGAAATTTTCAGAAATGAAGTTTCATT
                                          ||| || |  || | || |  |  ||||||   ||     | | |    | |  |||      ||| | | |  ||| ||||||||| || ||  |||| ||||| |||||||| ||||||||||| |||||||| ||||||||||||||||||||||| | | |||||||| || 
gtgattcaagaaacataatgagcttcttgcagtttttctcaagtgtaaaagaaggattagtttactgttattgctaggtgggactaaccactagtttttgtgaactgtaactttgcagGCTATGATTGGTGAATATTTGGGACAACATGAGGAGTTCCCTCTTGCTGTGATGCATGCTTATGTTGATTCAATGAAATTTTCGGGATTGAAGTTTGATG

upper sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GRMZM2G335287_T01 (Zea mays), 3'ss of exon 17
-----------------------------gtggaacactagaac---tatgcatagttattttcagtatttataggtggg-atttaactgttgtta----tatatagGTTATGATTGGCGATTACCTGGGCCAACACGAGGAGTTTCCTCTTGCTGTCATGCATGCATATGTTGATTCAATGAAATTTTCAGAAATGAAGTTTCATT
                              || |||| || |||   |||  |  |||||||     |    |        || ||||| ||||||    |||  ||||||||||||| || ||| |||| || || |||||||| ||||||||||| |||||||| |||||||| || ||||| ||||||| | |||||||| || 
gtgatttcaaaatttcattgagtgtcttgctgtaacaatataactgttatttaatgttatttgtcaaaagggtgtacacacatctaacttttgttagctatatgcagGTTATGATTGGTGAGTACTTGGGACAGCATGAGGAGTTCCCTCTTGCTGTGATGCATGCCTATGTTGACTCCATGAAGTTTTCAGGATTGAAGTTTGATG

upper sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GLYMA17G04890.1 (Glycine max), 3'ss of exon 19
-----------------gtggaacactagaactatgcatagttattttcagtatttataggtgggatttaactgttg-ttatatatagGTTATGATTGGCGATTACCTGGGCCAACACGAGGAGTTTCCTCTTGCTGTCATGCATGCATATGTTGATTCAATGAAATTTTCAGAAATGAAGTTTCATT
                 ||    || |  || | |  ||    |  | ||   ||  |  |    || ||||||||| ||   |  ||| ||  ||||| || ||  | || ||||| || |||||||| |||||||| |||||||| ||||| ||||| ||||||||||| | | | || ||| || 
gttgtgactcttctcttgtactgcaatttaattttttatctacacatccaagtttggtctggaatatataactgttggttgctttcagGCTACAATTGGTGACTATTTAGGTCAACATGAAGAGTTTCCCCTTGCTGTGATGCATGCTTATGTAGATTCCATGAAATTTTCTGGATTTAAATTTGATA

upper sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GLYMA13G17610.1 (Glycine max), 3'ss of exon 19
-------------gtggaacactagaact----atgcatagttattttcagtatttataggtgggatttaactgttg-ttatatatagGTTATGATTGGCGATTACCTGGGCCAACACGAGGAGTTTCCTCTTGCTGTCATGCATGCATATGTTGATTCAATGAAATTTTCAGAAATGAAGTTTCATT
              | | | | |  || |    ||  |   ||   | ||   ||  |  |    || ||||||||| ||   |  ||| ||  ||||| || ||  | || ||||| || || ||||| |||||||| |||||||| ||||| ||||| ||||||||||| | | | || ||| || 
gttgtgaccttctctagtataatttaatttttgatctaccattgcatccaagtttggtctggaatatataactgttggttgctttcagGCTACAATTGGTGACTATTTAGGTCAACATGAAGAATTTCCCCTTGCTGTGATGCATGCTTATGTAGATTCCATGAAATTTTCTGGATTTAAATTTGATA

upper sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 19
gtggaaca-ctagaactatgcatagttattttcagtattt--ataggtgggatttaactgttgtta--tatatagGTTATGATTGGCGATTACCTGGGCCAACACGAGGAGTTTCCTCTTGCTGTCATGCATGCATATGTTGATTCAATGAAATTTTCAGAAATGAAGTTTCATT
|||||    |||      |  |   ||| |||||  | |   |||| |  | | ||||  || |    | || ||| ||||||||| |||||| |||| || || ||||||||||| |||||||| |||||||| ||||| ||||| ||||| ||||| | |||||||||| || 
gtggattttctattttggtataactttagtttcatcaatggaatagatttg-tgtaacccttatggattttacagGCTATGATTGGTGATTACTTGGGTCAGCATGAGGAGTTTCCCCTTGCTGTTATGCATGCTTATGTGGATTCCATGAAGTTTTCTGGAATGAAGTTTGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgcatagttattttcagtatttataggtgggatttaactgttgttatatatagGTTATGATTGGCGATTACCTGGGCCAACACGAGGAGTTTCCTCTTGCTGTCATGCATGCATATGTTGATTCAATGAAATTTTCAGAAATGAAGTTTCATT
                                 atttaac  putative branch site (score: 3)
     atagttattttcagta  TA-rich tract