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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaccttttaaactgttcaatgttgtctcagaagtttcttttatttgctatttgttcttagttttgtgttctttgtttcagGTCATGACTACGGAGATTTTGCGTAGTATGCAGTATAAAGGGTCAGAGATTATGCGGGAGGTTGCGTGGATTATTTTTGATGAGGTGCATTACATGCGTG

Basic information

species Arabidopsis thaliana
transcript AT1G59760.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G59760.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os12g18140.1 (Oryza sativa), 3'ss of exon 2
gta-agtaccttttaaactgttcaatgttgtctcagaagtttcttttatttgctatttgttcttagttttgtgttctttgtttcagGTCATGACTACGGAGATTTTGCGTAGTATGCAGTATAAAGGGTCAGAGATTATGCGGGAGGTTGCGTGGATTATTTTTGATGAGGTGCATTACATGCGTG
|||  ||| | ||   | | ||  |  |  || ||    | | | |||  || | | | | |||| | |||  |       | ||||||||||| ||||| |||| |||||| |||||||||||||| |||||  | ||| |||| || || |||||||| |||||||| || || ||||||||||
gtatggtatccttatgattctttgaaatcatccca----tctatgttaaatgttttgt-tacttaatcttg-atctgaaaatgcagGTCATGACCACGGAAATTTGGCGTAGCATGCAGTATAAAGGATCAGAAGTCATGAGGGAAGTCGCTTGGATTATATTTGATGAAGTACACTACATGCGTG

upper sequence: AT1G59760.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G040995_T02 (Zea mays), 3'ss of exon 2
gtaagtaccttttaaactgttcaatgttgtctcagaagtttcttttatttgctatttgttcttagttttgtgttctt-tgtttcagGTCATGACTACGGAGATTTTGCGTAGTATGCAGTATAAAGGGTCAGAGATTATGCGGGAGGTTGCGTGGATTATTTTTGATGAGGTGCATTACATGCGTG
    ||||    |       |||    | | |||   | || |   ||||    || |  ||||      |   ||     | ||||||||||| || || |||| ||| || ||||| || || || || ||| | ||| |||| ||||| ||| |||| ||||||||||||||||||||||| |
----gtactgccttctgccctcaccactctttcaattgcttgtac-atttatgcttggaacttaaaaccattccctgacaatgcagGTCATGACCACAGAAATTTGGCGGAGCATGCAATACAAGGGATCTGAGGTCATGAGGGAAGTTGCCTGGGTTATATTTGATGAGGTGCATTACATGCGGG

upper sequence: AT1G59760.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv06s0009g01750.t01 (Vitis vinifera), 3'ss of exon 2
------gtaagtaccttttaaactgttcaatgttgtctcagaagtttcttttatttgctatt-tgttcttagtt-ttgtgtt----ctttgtttcagGTCATGACTACGGAGATTTTGCGTAGTATGCAGTATAAAGGGTCAGAGATTATGCGGGAGGTTGCGTGGATTATTTTTGATGAGGTGCATTACATGCGTG
        |  || | |||| | | || | | || ||  |   |   |||| |  || |  | | || |  |||  |   ||     | |||||||||| ||||| || || || | | | |||||||| || || || ||||| ||||| |||||||| || ||| | |||||||||||||| ||||| |||||||
gtaggcccagttatcatttata-tatttatttttttcctatttgagcctttgaaatgtttctgtattttgggttgctaaattatagttctgtttcagGTAATGACCACAGAAATCTGGAGAAGTATGCAATACAAGGGATCAGAAATTATACGGGAGGTGGCTTGGGTAATTTTTGATGAGGTACATTATATGCGTG

upper sequence: AT1G59760.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: EFJ23732 (Selaginella moellendorffii), 3'ss of exon 2
-----------------------------------------------------------------------------------------------------------gtaagtaccttttaaactgttcaatgttgt-ctcagaagtttcttttatttgctatttgttcttagttttgtgttctttgtttcagGTCATGACTACGGAGATTTTGCGTAGTATGCAGTATAAAGGGTCAGAGATTATGCGGGAGGTTGCGTGGATTATTTTTGATGAGGTGCATTACATGCGTG
                                                                                                            |  |    | ||       |  |||   |  |||  | || | ||   |||  | ||   | ||||  |   || | |  | |||||||||||||| ||||||||||| || |||||||||  |||||||||  | ||| | || ||||||||||| |||||||| || || || |||||| | |
gtaaatgtttcctcagcttggatagctcgctatgatgattctcatttatgataggaagatcagaagtgctccaatggagcgctcatgatgcttttacgagaattctgatgcgactttctttcttgactagatgccatattcaatacttccgttggcttgaaactta--catagtggt-cattatattctgcagGTCATGACTACCGAGATTTTGCGGAGCATGCAGTATCGAGGGTCAGAAGTCATGAGAGAAGTTGCGTGGATAATTTTTGACGAAGTTCACTACATGAGAG

upper sequence: AT1G59760.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: EFJ21372 (Selaginella moellendorffii), 3'ss of exon 2
-------------------------------------------------------------------------------------------------------------gtaagtaccttt-taaactgttcaatgttgtctcagaagtttcttttatttgctatttgttcttagttttgtgttctttgtttcagGTCATGACTACGGAGATTTTGCGTAGTATGCAGTATAAAGGGTCAGAGATTATGCGGGAGGTTGCGTGGATTATTTTTGATGAGGTGCATTACATGCGTG
                                                                                                             |  | |  |||| |  |||  |     |    |||  | || | ||   |||  | ||   | ||||  |   || | |  | |||||||||||||| ||||||||||| || |||||||||  ||| |||||  | ||| | || ||||||||||| |||||||| || || || |||||| | |
gtaaatgtttcctcagcttggatagctcgctatgatgagtctcatttatgataggaagatcagaagtgctccaatggagcgctcatgatgcttttacgagaattctgatgcgactttctttcttgactagttgccata--ttcaatacttccgttggcttgaaactta--catagtggt-cattatattctgcagGTCATGACTACCGAGATTTTGCGGAGCATGCAGTATCGAGGATCAGAAGTCATGAGAGAAGTTGCGTGGATAATTTTTGACGAAGTTCACTACATGAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcagaagtttcttttatttgctatttgttcttagttttgtgttctttgtttcagGTCATGACTACGGAGATTTTGCGTAGTATGCAGTATAAAGGGTCAGAGATTATGCGGGAGGTTGCGTGGATTATTTTTGATGAGGTGCATTACATGCGTG
                                          ttctttgtttc  CT-rich tract
     aagtttcttttattt  TA-rich tract