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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatactctaattttttgttattaaaccttattaagaggatatgaaaaaagaaagttgcagatgataaagcttgttgcttatttttactgcagCCTACGGTTGCTGCAATTGAAGCAGGAAAGGACATTGCTCTTGCAAACAAAGAGACATTAATCGCAGGTGGTCCTTTCGTGCTTCCGCTTGCCAACAAAC

Basic information

species Arabidopsis thaliana
transcript AT5G62790.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G62790.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os01g01710.1 (Oryza sativa), 3'ss of exon 5
-------gtatatactctaattttttgt-tat-taaaccttattaagaggatatgaaaaaagaaagttgcagatgataaagcttgttgcttatttttactgcagCCTACGGTTGCTGCAATTGAAGCAGGAAAGGACATTGCTCTTGCAAACAAAGAGACATTAATCGCAGGTGGTCCTTTCGTGCTTCCGCTTGCCAACAAAC
        |   | ||  | || | | |  ||  ||||   ||||  || || ||  |  |     |||| |||       |||     |  ||  |    |||||||| ||||||||||||||||| || || || || ||  | || |||||||||||| | || |||||||||||||| |||||||| |||||  | || |
gaattgaatgcttgctgaagttctgtatgcatgcaaactacattaccagaatctggcaccac----ttgctgatttgcctacttaaatttctttgctctgccagCCTACAGTTGCTGCAATTGAAGCTGGGAAAGATATAGCATTGGCGAACAAAGAGACACTTATTGCAGGTGGTCCTTTTGTGCTTCCCCTTGCACAAAAGC

upper sequence: AT5G62790.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G056975_T02 (Zea mays), 3'ss of exon 5
----gtatatactctaattttttgttattaaaccttattaagaggatatgaaaaaagaaagttgcagatgataaagcttgttgc-ttatttttactgc-agCCTACGGTTGCTGCAATTGAAGCAGGAAAGGACATTGCTCTTGCAAACAAAGAGACATTAATCGCAGGTGGTCCTTTCGTGCTTCCGCTTGCCAACAAAC
    | | ||  | |  ||  ||  |  |  | |  || ||   |  ||   |  ||  | |   || |||    | |  |||  || ||| | |||  ||||||| ||||||||||||||||| || || ||||| ||  | ||||||||||||||| | || |||||||||||||| |||||||| |||||  ||||||
atttgaacattatgtggttgctttgtgctgcatcaaataaatgagcaattttatcagtgaat-atagctgacttggttacttgtattgtttgttctgttagCCTACAGTTGCTGCAATTGAAGCTGGTAAAGACATAGCATTGGCAAACAAAGAGACACTTATTGCAGGTGGTCCTTTTGTGCTTCCCCTTGCACACAAAC

upper sequence: AT5G62790.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G036290_T01 (Zea mays), 3'ss of exon 5
----gtatatactctaattttttgttattaaaccttattaa-gaggatatgaaaaaagaaagttgcagatgataaagcttgttgcttatttttactgc-agCCTACGGTTGCTGCAATTGAAGCAGGAAAGGACATTGCTCTTGCAAACAAAGAGACATTAATCGCAGGTGGTCCTTTCGTGCTTCCGCTTGCCAACAAAC
      || ||      |||  | |  |  | ||  || || ||| |  | |  |  |||  | |  |       | |||  |  || ||| | |||| ||||||| ||||||||||||||||| || || ||||| ||  | ||||||||||| ||  | || ||||||||||||||||||||||| |||||  ||||||
aagttaatgtaactgggtttggtttggtgcacccagataaatgagcaatttaccagtgaatatagttgtctcggtaactttgta-ttgtttgttctgctagCCTACAGTTGCTGCAATTGAAGCTGGTAAAGACATAGCATTGGCAAACAAAGAAACGCTTATTGCAGGTGGTCCTTTCGTGCTTCCCCTTGCACACAAAC

upper sequence: AT5G62790.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S62_157V6.4 (Physcomitrella patens), 3'ss of exon 7
----------------------------------------------------------gtatatactctaattttttg-ttattaaaccttattaagaggatatgaaaaaagaaa----gttgcagatgataaagcttgttgc--ttatttttactgcagCCTACGGTTGCTGCAATTGAAGCAGGAAAGGACATTGCTCTTGCAAACAAAGAGACATTAATCGCAGGTGGTCCTTTCGTGCTTCCGCTTGCCAACAAAC
                                                            | |  ||  || |||  | || |  |   | | |  ||  ||||   | | |  |     |  ||| || | ||  || || |  |  | |||| ||||||| || |||||||| |||||||| ||||||||||||||| | || || ||||| || ||||| || || ||||| |  ||  | ||  | ||||| || |
gttcacccttcccctcagaacgtctaatgtttcgtaactgaatgcatggagcggtttctaacaggctagaaatttcaggttctctattatcactgtgac-atattgtagatgtcatcgcataccagttgtttaacattatttcaatcgtctttattgcagCCCACAGTTGCTGCTATTGAAGCTGGAAAGGACATTGCTTTGGCTAATAAAGAAACCTTAATTGCTGGAGGTCCATATGTTTTGCCTTTGGCCAAGAAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatatgaaaaaagaaagttgcagatgataaagcttgttgcttatttttactgcagCCTACGGTTGCTGCAATTGAAGCAGGAAAGGACATTGCTCTTGCAAACAAAGAGACATTAATCGCAGGTGGTCCTTTCGTGCTTCCGCTTGCCAACAAAC
                                       cttattttt  CT-rich tract
                                        ttatttttact  TA-rich tract