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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcactaatatctacctaccaatgcatttgagttgttgtgatttgaactaagaataatcatcaaaatgtgttctccgatcttgcagGTGGAATCTATTTACTTGAGATTCACCGTATAGTTCGACCTGGAGGTTTTTGGGTTCTTTCTGGTCCACCTGTGAACTATAATAGACGATGGCGTGGATG

Basic information

species Arabidopsis thaliana
transcript AT1G31850.3
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G31850.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA16G08120.1 (Glycine max), 3'ss of exon 5
-----gtaagcactaatatctacctaccaatgcatttgagtt----gttgtgatttgaactaagaataatcatcaa----aatgtgttctccgatcttgcagGTGGAATCTATTTACTTGAGATTCACCGTATAGTTCGACCTGGAGGTTTTTGGGTTCTTTCTGGTCCACCTGTGAACTATAATAGACGATGGCGTGGATG
      | |    | || | |  || | |||   |||  | |    | || ||  |  |||   |||  ||||        | | | | ||  || ||  ||||||||| ||| | ||||| |||||||| ||| |||| |||||||| ||||||||  | |||||||||||  | ||||| ||  |  | |||||||||||
ttttgatgatttgttatttgtttctgctaatctctttatgcttagagctgagaagttcactctaaattctcattctttttgacgaggtatcttatttt--agGTGGAATTTATCTCCTTGAAATTCACCGGATACTTCGTCCTGGAGGATTTTGGGTCTTGTCTGGTCCACCGATCAACTACAAGCGCAGGTGGCGTGGATG

upper sequence: AT1G31850.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: PP1S43_170V6.4 (Physcomitrella patens), 3'ss of exon 5
--------gtaagcactaatatctacctaccaatg------catttgagttgttgtgatttgaactaagaataatcatcaaaatgtgttctccgatcttgcagGTGGAATCTATTTACTTGAGATTCACCGTATAGTTCGACCTGGAGGTTTTTGGGTTCTTTCTGGTCCACCTGTGAACTATAATAGACGATGGCGTGGATG
         ||   ||  |||| ||   || |  |      || |||   | |||  |      |   | || |    | |  | || | |  ||  |  |||||||| | | | |  | ||  || |||| ||  | ||||||||||| |||||||||||||||||||||||  | || ||| | | | | |||   || ||
cacagtatatatatacacatatttatggactatcgttcaatcaattgctctattggaagccattcctcgtattactcactagct-tgatatgtgacat--cagGTGGAGTATTTCTTTTAGAAGTTGACCGAATTTTGCGACCTGGAGGCTTTTGGGTTCTTTCTGGTCCACCAATCAATTATCAGACATGGTGGAAGGGTTG

upper sequence: AT1G31850.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: EFJ21402 (Selaginella moellendorffii), 3'ss of exon 4
gtaagcactaatatctacctaccaatgcatttgagttgttgtgatttgaactaagaataatcatcaaaatgtgttctccgatcttgcagGTGGAATCTATTTACTTGAGATTCACCGTATAGTTCGACCTGGAGGTTTTTGGGTTCTTTCTGGTCCACCTGTGAACTATAATAGACGATGGCGTGGATG
                               | ||  | |   | |  | ||     |  |  ||||      | || |  |||| |||| ||| | |   |  | || ||| ||||| |  | || ||||| ||||||||||| ||||||||||| ||||| |||||  |    |  |||   |||||
------------------------------gtaagccgat---actaaagcttctcgtg-ttttcaacggacatgcttc--tcttacagGAGGAGTTTTCCTTTTGGAAATTGACCGTGTGCTGCGTCCTGGTGGTTTTTGGGTCCTTTCTGGTCCGCCTGTCAACTACGAGGTGCACTGGAAAGGATG

upper sequence: AT1G31850.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: EFJ23765 (Selaginella moellendorffii), 3'ss of exon 4
gtaagcactaatatctacctaccaatgcatttgagttgttgtgatttgaactaagaataatcatcaaaatgtgttctccgatcttgcagGTGGAATCTATTTACTTGAGATTCACCGTATAGTTCGACCTGGAGGTTTTTGGGTTCTTTCTGGTCCACCTGTGAACTATAATAGACGATGGCGTGGATG
                               | || || |   | |  |  |     |  |  || |      | || |  |||| |||| ||| | |   |  | || ||| ||||| |  | || ||||| ||||||||||| ||||||||||| ||||| |||||  |    |  |||   |||||
------------------------------gtaagctgat---actaaagtttctcgtg-ttttcgacggacatgcttc--tcttacagGAGGAGTTTTCCTTTTGGAAATTGACCGTGTGCTGCGTCCTGGTGGTTTTTGGGTCCTTTCTGGTCCGCCTGTCAACTACGAGGTGCACTGGAAAGGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgttgtgatttgaactaagaataatcatcaaaatgtgttctccgatcttgcagGTGGAATCTATTTACTTGAGATTCACCGTATAGTTCGACCTGGAGGTTTTTGGGTTCTTTCTGGTCCACCTGTGAACTATAATAGACGATGGCGTGGATG
                                       ttctccg  CT-rich tract
                     aataatcatcaaaat  TA-rich tract