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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggattttcagacactaacttagctgcttctctattaatagtcaaccaactaaatattacaagaagctacaacttcaccacgtttcttttctctgttacagGATGCATATCTTCCTCAGAGGCTTCTGGACAAACTGATGTTTATATATAATTATGTCGAAATGGCTCGTGTAACTGGTGTCCCTATTTCATTTCTTCTTG

Basic information

species Arabidopsis thaliana
transcript AT5G63960.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G63960.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA06G16110.1 (Glycine max), 3'ss of exon 12
--ggattttcagacactaacttagctgcttctctattaatagtcaaccaactaaatattacaagaagctacaacttcaccacgtttcttttctctgttacagGATGCATATCTTCCTCAGAGGCTTCTGGACAAACTGATGTTTATATATAATTATGTCGAAATGGCTCGTGTAACTGGTGTCCCTATTTCATTTCTTCTTG
   ||| ||  ||  | |   | | |   |  |   | | |   ||| || | ||    |        |  || ||||  || || ||| | | |  | |||||||||||||| |||||| ||||| |||| ||| ||||||| || || |||||||| || |||||||| ||||| |||||||| ||||| ||||| ||| 
tcagatattgtgaatccattatgggtatattacatgtgaaaaaaaactaagtgaaataaattgaccattcaaaattcat-actttgcttgtgt-taatgcagGATGCATATCTCCCTCAGCGGCTTTTGGATAAATTGATGTTCATTTACAATTATGTGGAGATGGCTCGAGTAACAGGTGTCCCAATTTCTTTTCTACTTT

upper sequence: AT5G63960.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA04G38800.1 (Glycine max), 3'ss of exon 12
ggattttcagacactaacttagctgcttc--tctattaatagtcaaccaactaaatattacaagaagctacaacttcaccacgtttcttttctctgttacagGATGCATATCTTCCTCAGAGGCTTCTGGACAAACTGATGTTTATATATAATTATGTCGAAATGGCTCGTGTAACTGGTGTCCCTATTTCATTTCTTCTTG
| |      | || |    |    | |    |  ||    |   ||| || | ||    |        |  || ||||    ||||  ||       | |||||||||||||| |||||| ||||| |||| ||| ||||||| || || |||||||| || |||||||| ||||| |||||||| ||||| ||||| ||| 
gaaaaccatgccatttctgtgatgggtatattacatctgaaaaaaactaagtgaaataaattgaccattcaaaattcata--gtttgcttgtctaaatgcagGATGCATATCTCCCTCAGCGGCTTTTGGATAAATTGATGTTCATTTACAATTATGTGGAGATGGCTCGAGTAACAGGTGTCCCAATTTCTTTTCTACTTT

upper sequence: AT5G63960.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: PP1S14_182V6.1 (Physcomitrella patens), 3'ss of exon 12
--------------------------------------------------------ggattttcagacactaacttag-ctgcttctctattaatagtcaaccaactaaatattacaagaagc------tacaacttcaccacgt--ttcttttctctgt-tacagGATGCATATCTTCCTCAGAGGCTTCTGGACAAACTGATGTTTATATATAATTATGTCGAAATGGCTCGTGTAACTGGTGTCCCTATTTCATTTCTTCTTG
                                                         | | || |        | ||| |   || | |   || |        ||  |   | | ||  ||          |   | |||| |   | | ||  | | |  |||||| || |||||||||||| |  | |||||||| || |||| |||||| |||||||| || ||||||||||| |||||||| ||||| || ||||||||||
gtatgtgtatcttgatctagtcacatgagtggtctttaacttgtattagctgtatttgttgtttatctggccgcgtaggccatttttttggcaacaacttgagtacatagcctaataaagagtgcgtctcgtacactgaccatgaggtaccttcatttatgcacagGACGCTTATCTTCCTCAGCGATTACTGGACAAGCTTATGTATATATACAATTATGTTGAGATGGCTCGTGTTACTGGTGTTCCTATCTCCTTTCTTCTTG

upper sequence: AT5G63960.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: EFJ15982 (Selaginella moellendorffii), 3'ss of exon 11
ggattttcagacactaacttagctgcttctctattaatagtcaaccaactaaatattacaagaagctacaacttcaccacgtttcttttctctgttacagGATGCATATCTTCCTCAGAGGCTTCTGGACAAACTGATGTTTATATATAATTATGTCGAAATGGCTCGTGTAACTGGTGTCCCTATTTCATTTCTTCTTG
                                              | |   |  ||    |   |||    |  |       | ||||||||||  |||||||| ||||| ||||||||  | || || || ||||||||||||||||| ||| ||||||||||  | ||||| || || || ||||| ||||||||| 
-------------------------------------------gtgagccgcacttt----ggttctatgtttatattttccatgttttctctgt--cagGATGCGTATCTGCCTCAGAGATTACTCGAAAAGCTGATGTTTATATATAACTATATCGAAATGGCAAGAGTAACAGGAGTTCCCATTTCGTTTCTTCTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caactaaatattacaagaagctacaacttcaccacgtttcttttctctgttacagGATGCATATCTTCCTCAGAGGCTTCTGGACAAACTGATGTTTATATATAATTATGTCGAAATGGCTCGTGTAACTGGTGTCCCTATTTCATTTCTTCTTG
 aactaaa  putative branch site (score: 2)
                          cttcaccacgtttctt  putative PPT
     aaatattacaagaa  TA-rich tract