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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cacactttcatttcttgaaatttagatcgaggtaaaccttaatacagaatggtaatgacaatctagcatccccttttggttgcttcctgaatttgagcagGTTAAAATTTGGGATCCAAGTCTGCGTGGTTCTGAACTTCGAGCAACTTTGAAAGGACATACTGG

Basic information

species Arabidopsis thaliana
transcript AT1G49040.3
intron # 23
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G49040.1 (Arabidopsis thaliana), 3'ss of exon 23
lower sequence: LOC_Os01g39380.1 (Oryza sativa), 3'ss of exon 24
--cacactttcatttcttgaaatttagatcgaggtaaaccttaatacagaatggtaatgacaatctagcatccccttttggttgcttcctgaat-ttgagcagGTTAAAATTTGGGATCCAAGTCTGCGTGGTTCTGAACTTCGAGCAACTTTGAAAGGACATACTGG
   |||  ||  |  ||     |  |   | ||| || |  |    ||| |    |||     |  |   |   ||  |  ||  ||  || |  ||   ||||| ||||| |||||||||||| |||||||||||||||||||  ||||  | ||||| || ||| |
tatacagctt-gtagctaatgctgcattactaggaaatctgttgctcaggaaa--aattcttgtggatattttactgatactttgtttatgtacattttacagGTAAAAATATGGGATCCAAGTTTGCGTGGTTCTGAACTTCGGACAACACTTAAAGGGCACACTAG

upper sequence: AT1G49040.1 (Arabidopsis thaliana), 3'ss of exon 23
lower sequence: GRMZM2G074466_T01 (Zea mays), 3'ss of exon 4
cacactttcatttcttgaaatttagatcgaggtaaaccttaatacagaatggtaatgacaatctagcatcc---ccttttggttgcttcctgaatttgagcagGTTAAAATTTGGGATCCAAGTCTGCGTGGTTCTGAACTTCGAGCAACTTTGAAAGGACATACTGG
    |  | ||||      |  ||    ||  ||   | |  ||        |       || | |   |    | ||| | ||| ||| |  || | | ||||| |||||||||||||||||| |||||||||||||||||||||||||  | ||||| |||||| |
--tcccctgatttgaattgagctatgctgaattattacatggtatctttatctgtctttgatttggacactgaacatttagtttgtttcgtacatctca-cagGTAAAAATTTGGGATCCAAGTTTGCGTGGTTCTGAACTTCGAGCAACACTTAAAGGGCATACTAG

upper sequence: AT1G49040.1 (Arabidopsis thaliana), 3'ss of exon 23
lower sequence: GLYMA08G04510.1 (Glycine max), 3'ss of exon 23
cacactttcatttcttgaaatttagatcgaggtaaaccttaatacagaatggt--aatgacaatctagcatccccttttggttgct------tcc---tgaatttgagcagGTTAAAATTTGGGATCCAAGTCTGCGTGGTTCTGAACTTCGAGCAACTTTGAAAGGACATACTGG
         |  | |  | || ||   |  || | | | |  ||| || | ||   ||  |  ||| | | ||    |  | || |      | |   || |  |  ||||||||| || |||||||| ||||| ||||||||||||||  | |||||||| ||||| |||||| |
-------gtaagtttcaatatctatcacatggaataacctggtactgagttgtttcattgccttctggtacccagaatgaggtgatatgctgttcatgtgcaaatatgcagGTTAAGATCTGGGATCCTAGTCTTCGTGGTTCTGAACTCAGGGCAACTTTAAAAGGCCATACTAG

upper sequence: AT1G49040.1 (Arabidopsis thaliana), 3'ss of exon 23
lower sequence: GLYMA05G35210.1 (Glycine max), 3'ss of exon 6
cacactttcatttcttgaaatttagatcgaggtaaaccttaatacagaatggt--aatgacaatctagcatccccttttggttgct------tcc---tgaatttgagcagGTTAAAATTTGGGATCCAAGTCTGCGTGGTTCTGAACTTCGAGCAACTTTGAAAGGACATACTGG
         |  | |  | || ||      || |   | |  ||| || | ||   ||  |  ||| | | ||    |  | || |      | |   || |  |  ||||||||| || |||||||| ||||| ||||||||||||||  | |||||||| ||||| |||||| |
-------gtaagtttcaatatctatcatatggaattacctggtactgagttgtttcattgccttctggtacccagaatgaggtgatatgctgttcatgtgcaaatatgcagGTTAAGATCTGGGATCCTAGTCTTCGTGGTTCTGAACTCAGGGCAACTTTAAAAGGGCATACTAG

upper sequence: AT1G49040.1 (Arabidopsis thaliana), 3'ss of exon 23
lower sequence: Vv17s0000g03950.t01 (Vitis vinifera), 3'ss of exon 23
cacactttcatttcttgaaatttagatcgaggtaaaccttaa--tacagaatggtaatgacaatctagcatccccttttggttgcttcctgaatttgagcagGTTAAAATTTGGGATCCAAGTCTGCGTGGTTCTGAACTTCGAGCAACTTTGAAAGGACATACTGG
   |||| || |  |  | |  || ||      || | ||||  | ||| |  | |||   ||   |   |     |    ||  || |   |  || |||||| || || |||||||| | ||| ||||||||||||||| | ||||||||||||||||||||   
--aacttccaatgatcaatacataaattctataaagcattaaactgcagcactggaatagaaaagcatggtggttatcatttttttttccataactgtgcagGTGAAGATCTGGGATCCTACTCTTCGTGGTTCTGAACTTAGGGCAACTTTGAAAGGACATACAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaatggtaatgacaatctagcatccccttttggttgcttcctgaatttgagcagGTTAAAATTTGGGATCCAAGTCTGCGTGGTTCTGAACTTCGAGCAACTTTGAAAGGACATACTGG
                                          tgaattt  TA-rich tract