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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttaataatgtagttacaacttatggccatttcttaggtggtttatgcgcaatgtttggttactatctttagaatttatggctttatttccctgttttggtagGTCGGTCTTCCTGGAACAGGGAAAACCCTTCTTGCAAAAGCTGTTGCTGGGGAATCTGATGTTCCATTCATAAGTTGCTCTGCAAGTGAGTTTGTAGAGC

Basic information

species Arabidopsis thaliana
transcript AT5G58870.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G58870.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os02g43350.1 (Oryza sativa), 3'ss of exon 4
gtgagtttaataatgtagttacaacttatggccatttcttaggtggtttatgcgcaatgtttggttactatctttagaatttatggctttatttccctgttttggtagGTCGGTCTTCCTGGAACAGGGAAAACCCTTCTTGCAAAAGCTGTTGCTGGGGAATCTGATGTTCCATTCATAAGTTGCTCTGCAAGTGAGTTTGTAGAGC
                       | || || |  |   ||| ||  |  |||     || | |  ||   | |||  |   ||||  | || |||  | |||    |||| || ||||| ||||| || || || ||||||||||||||||| || |||||| |||| || |||||||||||||||||||||||||| ||||| ||| 
--------------------gtcagttctg-cagtcatttaagtaatg-atgaatgttgctggactagagtttttgta--ctatga-tgtaattcattattt--acagGTGGGCCTTCCAGGAACTGGAAAGACGCTTCTTGCAAAAGCTGTCGCAGGGGAAGCTGAAGTCCCATTCATAAGTTGCTCTGCAAGTGAATTTGTGGAGT

upper sequence: AT5G58870.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G072865_T05 (Zea mays), 3'ss of exon 4
-------gtgagtttaataatgtagttacaacttat-ggccatttct-taggtggtttatgc----gcaatgtttggttactatctttagaatttatggctttatttccctgttttggtagGTCGGTCTTCCTGGAACAGGGAAAACCCTTCTTGCAAAAGCTGTTGCTGGGGAATCTGATGTTCCATTCATAAGTTGCTCTGCAAGTGAGTTTGTAGAGC------------
         | | |        | ||     ||||| ||    ||||  |  || |||  |     | ||    || ||   |  | |     |||      | |    || | |    |||| |||||||| || || || || || |||||||||||||| || || || ||| | || || |||||||||||||||||||| ||||| ||||| ||||            
ttcgtctcggtgctcgccctcctcgtggtgtcttattggttggttctgcaaatgcttttagtaatggaaactactgcttgacaattgtgtttgttaccataatgtaattctttctctacaggtgggtcttccagggactggaaagacacttcttgcaaaagccgtagcaggagaagcagaagTCCCATTCATAAGTTGCTCTGCTAGTGAATTTGTTGAGCTATATGTAGGCA

upper sequence: AT5G58870.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G072865_T01 (Zea mays), 3'ss of exon 4
gtgagtttaataatgtagttacaacttatggccatttcttaggtggtttatgcgcaatgtttggttactatctttagaatttatggctttatttccctgttttggtagGTCGGTCTTCCTGGAACAGGGAAAACCCTTCTTGCAAAAGCTGTTGCTGGGGAATCTGATGTTCCATTCATAAGTTGCTCTGCAAGTGAGTTTGTAGAGC
                         || ||   ||   ||  ||  |  |  |  | || |||   | | | |||     |||      | |    || | |    |||| |||||||| || || || || || |||||||||||||| || || || ||| | || || |||||||||||||||||||| ||||| ||||| ||||
--------------------gttggttctgcaaatgcttttagtaatggaaac-tactgcttgacaattgtgtttg----ttaccataatgtaattctttctctacagGTGGGTCTTCCAGGGACTGGAAAGACACTTCTTGCAAAAGCCGTAGCAGGAGAAGCAGAAGTCCCATTCATAAGTTGCTCTGCTAGTGAATTTGTTGAGC

upper sequence: AT5G58870.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G163193_T02 (Zea mays), 3'ss of exon 4
gtgagtttaataatgtagttacaacttatggccatttcttaggtggtttatgcgcaatgtttggttactatctttagaatttatggctttatttccctgttttggtagGTCGGTCTTCCTGGAACAGGGAAAACCCTTCTTGCAAAAGCTGTTGCTGGGGAATCTGATGTTCCATTCATAAGTTGCTCTGCAAGTGAGTTTGTAGAGC
                         || ||   ||    |  ||  |        | || |||   | | | |||     |||     || ||   || | |    |||| |||||||| || || || || || |||||||||||||| || || || ||| | || || || ||||||||||||||||| ||||| ||||| ||||
--------------------gttggttttgcaaatgctatcagtaatg-gcaattactgcttgacaattgtgtttg----ttaccatattgttattctttatctacagGTGGGTCTTCCAGGGACTGGAAAGACACTTCTTGCAAAAGCCGTAGCAGGAGAAGCAGAAGTCCCGTTCATAAGTTGCTCTGCTAGTGAATTTGTTGAGC

upper sequence: AT5G58870.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA18G07280.1 (Glycine max), 3'ss of exon 4
gtgagtttaataatgt-agttacaacttatggccatttcttaggtggtttatgcgcaatgtttggttactatctttagaatttatggctttatttccctgttttggtagGTCGGTCTTCCTGGAACAGGGAAAACCCTTCTTGCAAAAGCTGTTGCTGGGGAATCTGATGTTCCATTCATAAGTTGCTCTGCAAGTGAGTTTGTAGAGC
     |  |||  | | | ||    ||| |   ||| | | |||   ||||  |    | ||   ||   ||||    |  |  ||  | | | |   |  | |   |||| ||||||||||||||||| || ||  | ||||| || ||||| ||||||||| ||||||| ||||| |||||||| ||||| |||||||| |||||  
----ttgaaatgttttcacttttgtcttttctgcatgtttgaggattttta-acattgttttatattgtcatct----aggtagtgaatatctgttgattatcttacagGTGGGTCTTCCTGGAACAGGTAAGACTTTACTTGCGAAGGCTGTGGCTGGGGAAGCTGATGTGCCATTTATAAGTTGTTCTGCTAGTGAGTTCGTAGAAT

upper sequence: AT5G58870.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA0028S00210.2 (Glycine max), 3'ss of exon 4
gtgagtttaataatgtagttacaacttatggccatttcttaggtggtttatgcgcaatgtttggttactatctttagaatttatggctttatttccctgttttggtagGTCGGTCTTCCTGGAACAGGGAAAACCCTTCTTGCAAAAGCTGTTGCTGGGGAATCTGATGTTCCATTCATAAGTTGCTCTGCAAGTGAGTTTGTAGAGC
        |||  | |   |      | ||     |  ||  |   |||        | || ||||   ||||  ||  | |     | | | |   |    |   |||| ||||||||||| ||||| || ||  | |||||||| ||||| ||||||||| ||||||| ||||| |||||||| ||||| |||||||| |||||  
------gaaatgttttcacttttgtctttgctgcatgtttgaggatttttaatattgttttaggttgacatct--aggctgtgaatatctctcttgattaccttacagGTGGGTCTTCCTGGCACAGGTAAGACTTTACTTGCAAAGGCTGTGGCTGGGGAAGCTGATGTGCCATTTATAAGTTGTTCTGCTAGTGAGTTCGTAGAAT

upper sequence: AT5G58870.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA14G37090.1 (Glycine max), 3'ss of exon 5
gtgagtttaataatgtagttaca--acttatggcca--tttcttaggtggtttatgcgcaatgtttggttactatctttagaatttatggctttatttccctgttttggtagGTCGGTCTTCCTGGAACAGGGAAAACCCTTCTTGCAAAAGCTGTTGCTGGGGAATCTGATGTTCCATTCATAAGTTGCTCTGCAAGTGAGTTTGTAGAGC
         | | ||||  |  |  | |||| ||||  || | |       ||||    | |||||   |   |  | |||    ||    |  | |    | | ||   |||| ||||||||||| ||||| || ||  | || ||||| ||||| || |||||| ||||||| ||||| |||||||| ||||| ||||||||||||||| 
--------cacagtgtatgtggattatttatagccaagttaccttttcatattat---tattgttttaatttgacatgtaggtagtaaatatccactgttttatctta-cagGTGGGTCTTCCTGGGACAGGTAAGACTTTACTGGCAAAGGCTGTGGCAGGGGAAGCTGATGTGCCATTTATAAGTTGTTCTGCTAGTGAGTTTGTAGAGT

upper sequence: AT5G58870.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA02G39040.1 (Glycine max), 3'ss of exon 5
gtgagtttaataatgtagttacaacttatggcca--tttcttaggtggtttatgcgcaatgtttggttactatctttagaatttatggctttatttccctgttttggtagGTCGGTCTTCCTGGAACAGGGAAAACCCTTCTTGCAAAAGCTGTTGCTGGGGAATCTGATGTTCCATTCATAAGTTGCTCTGCAAGTGAGTTTGTAGAGC
       | ||  | |    |  | |||| ||||  || |||       ||||    | |||||   |   |    |||    ||    |  | |    | | ||   |||| ||||||||||| ||||| || ||  | || ||||| ||||| || |||||| ||||||| ||||| |||||||| ||||| ||||||||||||||| 
------ctcatcgtatgtggattatttatagccaagttactttttcatattat---tattgttttaatttgaaacgtaggtagtaaatatccactgttttatctta-cagGTGGGTCTTCCTGGGACAGGTAAGACTTTACTGGCAAAGGCTGTGGCAGGGGAAGCTGATGTGCCATTTATAAGTTGTTCTGCTAGTGAGTTTGTAGAGT

upper sequence: AT5G58870.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv06s0004g06120.t01 (Vitis vinifera), 3'ss of exon 4
gtgagtttaataatgtagttacaacttatggccatttcttaggtggtttatgcgcaatgtttggttactatctttagaatttatggctttatttccctgttttggtagGTCGGTCTTCCTGGAACAGGGAAAACCCTTCTTGCAAAAGCTGTTGCTGGGGAATCTGATGTTCCATTCATAAGTTGCTCTGCAAGTGAGTTTGTAGAGC
     |   | |    || ||||| |  |  ||||   |||      ||    | ||  |||  |   |  ||||    | || |      |||  || | ||   |||| ||||||||||| ||||| || || || || ||||| ||||| ||||||||  |||| || || || |||||||| ||||||||||||||||||||  
----ctaccaaagaacagatacaagtggtttccataatttac---tcttggatgtaagtttttatgtatggctttgatttgtaagtacggctttggctatctta-cagGTGGGTCTTCCTGGGACAGGTAAGACTCTCCTAGCAAAGGCTGTGGCTGGGGAGGCTGAAGTGCCTTTTATAAGTTGTTCTGCAAGTGAGTTTGTAGAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaatgtttggttactatctttagaatttatggctttatttccctgttttggtagGTCGGTCTTCCTGGAACAGGGAAAACCCTTCTTGCAAAAGCTGTTGCTGGGGAATCTGATGTTCCATTCATAAGTTGCTCTGCAAGTGAGTTTGTAGAGC
                                 ctttatttccctgttt  CT-rich tract
               tatctttagaatttat  TA-rich tract