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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggctttagattcatatcttagcaatgaaaatgtttttttcagacaaattcgttttagtttggcagtttgggtaggtgctaggtgcagctttataagagtgatgtcacgttaaaatcttagccagatatcaaaataacttttgtgacaaattctgtttcttgggctgttacagGATGTGTATCTGCAGACTACTTGCCTTGCTACGTTGGCTAACATGGCACCTCATGCCCATCATTTAAGTGCATATGCCTCACAGAGGCTTGTCAGCCTTT

Basic information

species Arabidopsis thaliana
transcript AT1G04200.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G04200.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA20G28880.1 (Glycine max), 3'ss of exon 9
gtatggctttagattcatatcttagcaatgaaaatgtttttttcagacaaattcgttttagtttggcagtttgggtaggtgctaggtgcagctttataagagtgatgtcacgt-taaaatcttagccagatatcaaaataacttttgtgacaaattctgtttcttgggctgttacagGATGTGTATCTGCAGACTACTTGCCTTGCTACGTTGGCTAACATGGCACCTCATGCCCATCATTTAAGTGCATATGCCTCACAGAGGCTTGTCAGCCTTT
             |  | ||||||  ||   | |||   | || |   ||  || |||   | |   | || |  |   ||||   ||    | | |||    ||  |  | | ||   | |     | |||   |||  |  ||| ||        | | | |||   | | | ||||||| ||||| || || || ||||| || || ||||| ||||||||||||||||  |||| ||| ||||||||||| || |||||  | ||||||||||
------------gtataaatctta--aacttagatggactattaatttaatctcattt--atctaaaaattagcttttctgctgactg--attatttaattcagacattgcatatattgtatggaaaaaatacgtaaaatatatttctg-------ttatgtattgaattatgatagGATGTCTATCTCCAAACAACATGCCTGGCAACCTTGGCAAACATGGCACCTCATGTTCATCGTTTGAGTGCATATGCATCTCAGAGATTAGTCAGCCTTT

upper sequence: AT1G04200.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA10G00550.1 (Glycine max), 3'ss of exon 10
gtatggctttagattcatatcttagcaatgaaaatgtttttttcagacaaattcgttttagtttggcagtttgggtaggtgctaggtgcagctttataagagtgatgtcacgttaaaatcttagccagatatcaaaataac-ttttgtgacaaattctgtttcttgggctgttacagGATGTGTATCTGCAGACTACTTGCCTTGCTACGTTGGCTAACATGGCACCTCATGCCCATCATTTAAGTGCATATGCCTCACAGAGGCTTGTCAGCCTTT
                                                                      ||| ||  ||   || | ||  ||| ||  | | |  | | |||        |   | || |  | ||    |  |   | |   | | | | |||   ||| | ||||||| ||||| || || || || || || || ||||| |||||||||||||||| ||| | ||| ||||||||||| || ||||| || |||||||| |
---------------------------------------------------------------------attgtgtttgta--agcttcaagtttgtattaattacttaatgtt-----tccattgatatgtttatatggtgtgctaaaataggatat-tatgttgaattgtgatagGATGTATATCTTCATACAACATGTCTGGCAACATTGGCAAACATGGCACCTCATGTCCACCGTTTGAGTGCATATGCATCTCAGAGACTAGTCAGCCTCT

upper sequence: AT1G04200.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA10G38920.2 (Glycine max), 3'ss of exon 10
gtatggctttagattcatatcttag--caatgaaaatgtttttttcagacaaattcgttttagtttggcagtttgggtaggtgctaggtgcagctttataagagtgatgtcacgttaaaatcttagccagatatcaaaataacttttgtgacaaattctgtttcttgggctgttacagGATGTGTATCTGCAGACTACTTGCCTTGCTACGTTGGCTAACATGGCACCTCATGCCCATCATTTAAGTGCATATGCCTCACAGAGGCTTGTCAGCCTTT
             |  | ||||||     |     |   ||  || |  |  ||   | | |  || ||  ||  | |   || |   |  |    || |  |   || |    |  |||    |   |  ||  | ||  | || |||         | | | |||   | | | ||||||| ||||| || || || ||||| || || ||||| ||| ||||||||||||  |||| ||| ||||||||||| || |||||  | ||||||||||
------------gtataaatcttaaactgagatggactattaatttaatctcatgtatctaaaattagcctttccgctgactgattatttaattcatacattacatatattgtatggaaa----aaatacgtaatataa--atttctgt---------tatgtattgaattatgatagGATGTCTATCTCCAAACAACATGCCTGGCAACCTTGGCAAACGTGGCACCTCATGTTCATCGTTTGAGTGCATATGCATCTCAGAGATTAGTCAGCCTTT

upper sequence: AT1G04200.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv05s0020g04100.t01 (Vitis vinifera), 3'ss of exon 10
gtatggctttagattcatatcttagcaatgaaaatgtttttttcagacaaattcgttttagtttggcagtttgggtaggtgctaggtgcagctttataagagtgatgtcacgttaaaatcttagccagatatcaaaataacttttgtgacaaattctgtttcttgggctgttacagGATGTGTATCTGCAGACTACTTGCCTTGCTACGTTGGCTAACATGGCACCTCATGCCCATCATTTAAGTGCATATGCCTCACAGAGGCTTGTCAGCCTTT
                                                             |  ||   ||||   |  ||| |     ||  ||  |||     | |    |   |||| |  |    |||||       |||| |      ||     | ||    ||| ||||||||| ||||| || || |  || || || || ||||| |||||||| ||||||||||| | ||||||||| ||||| ||||||||||| || |||||||
-----------------------------------------------------------cttcaggagatttgtcaatatgcaaa----agtatttaaagcactgtattttataccaatcctttcttactatca-------tttttt------tttcacatgttaaattgtgacagGATGTTTATCTTCATACAAACTGTCTCGCAACTTTGGCGAACATGGCTCCTCATGCCCACCGTTTAAGTGCCTATGCATCACAGAGGCTGGTTAGCCTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagccagatatcaaaataacttttgtgacaaattctgtttcttgggctgttacagGATGTGTATCTGCAGACTACTTGCCTTGCTACGTTGGCTAACATGGCACCTCATGCCCATCATTTAAGTGCATATGCCTCACAGAGGCTTGTCAGCCTTT
             aaataac  putative branch site (score: 2)
       atatcaaaataacttt  TA-rich tract