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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtgtcatacttaagtttatggttgtgtacagtcatgctatttatttcacgagaaataggttgacaaatgtacacattttgacttactatctataagttagATACAATGGCGTGCACTTGATGAGATAAACGCAGGGGTGTGTGATG

Basic information

species Glycine max
transcript GLYMA11G27410.1
intron # 24
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G27410.1 (Glycine max), 3'ss of exon 24
lower sequence: LOC_Os05g07130.2 (Oryza sativa), 3'ss of exon 18
gttagtgtcatacttaagtttatggttgtgtacagtcatgctatttatttcacgagaaataggttgacaaatgtacacattttgac--ttactatctataagttagATACAATGGCGTGCACTTGATGAGATAAACGCAGGGGTGTGTGATG----------------------------------------------
          || | | |   |  ||| || |   |  |  ||  ||  ||  |  |  ||| |    | |||  |     || ||  ||  | | |  |     ||||||||||||||| ||||||||||||||| | |||||||||||||                                              
---------gtaatcagg---aaagttttggagtatt-tcttacataactcttgcaaggtagttatttatatgggcgttgcttaacaattgttgtttgca-----gATACAATGGCGTGCTCTTGATGAGATAAACTCTGGGGTGTGTGATGGGATGACGTATGAAGAGATAAAGAAAGTTATGCCCGAGGAATTTGA

upper sequence: GLYMA11G27410.1 (Glycine max), 3'ss of exon 24
lower sequence: LOC_Os03g18310.1 (Oryza sativa), 3'ss of exon 17
gttagtgtcatacttaagtttatggttgtgtacagtcatgctatttatttcacgagaaataggttgacaaatgt-acacattttgacttactatctataagttagATACAATGGCGTGCACTTGATGAGATAAACGCAGGGGTGTGTGATG----------------------------------------------
|| ||| |    ||  ||   ||         ||   | |  | || | || | |    |||  |  ||||  | ||||        || | || | |    |||||||||||||||||||||||||| |||||||| ||  | |||||||                                              
gtcagttt---gctctaggaaattaccaaactcaagtaagaaaattttgtctcaacttttag-ctatcaaacctgacactggcatgttttccatgtgtcctctagATACAATGGCGTGCACTTGATGAAATAAACGCTGGCATCTGTGATGGGATGACGTATGATGAAATAAAGAAAATTAAACCTGAAGAATATGA

upper sequence: GLYMA11G27410.1 (Glycine max), 3'ss of exon 24
lower sequence: LOC_Os03g18310.3 (Oryza sativa), 3'ss of exon 16
gttagtgtcatacttaagtttatggttgtgtacagtcatgctatttatttcacgagaaataggttgacaaatgt-acacattttgacttactatctataagttagATACAATGGCGTGCACTTGATGAGATAAACGCAGGGGTGTGTGATG------------------------------------------------------
|| ||| |    ||  ||   ||         ||   | |  | || | || | |    |||  |  ||||  | ||||        || | || | |    |||||||||||||||||||||||||| |||||||| ||  | |||||||                                                      
gtcagttt---gctctaggaaattaccaaactcaagtaagaaaattttgtctcaacttttag-ctatcaaacctgacactggcatgttttccatgtgtcctctagATACAATGGCGTGCACTTGATGAAATAAACGCTGGCATCTGTGATGGGATGACGTATGATGAAATAAAGAAAATTAAACCTGAAGAATATGAGTACGCAA

upper sequence: GLYMA11G27410.1 (Glycine max), 3'ss of exon 24
lower sequence: GRMZM5G824405_T02 (Zea mays), 3'ss of exon 16
gttag-tgtcatacttaagtttatggttgtgtacagtcatgctatttatttcacgagaaataggttgacaaatgtacacattttgacttactatctataagttagATACAATGGCGTGCACTTGATGAGATAAACGCAGGGGTGTGTGATG----------------------------------------------
||||| | |||||  | |    || |   |    || | |||| | || ||    | | |   |||  ||||  ||     |||  | |  | |   |    ||||||||||||||||| ||||||||||| || || ||||| |||||||                                              
gttagctatcataggtgataaaataggcctagcaagac-tgctctctactt----atagaagtgttaccaaaactaacttgtttctcctcatgttctt---ctagATACAATGGCGTGCTCTTGATGAGATCAATGCTGGGGTCTGTGATGGGATGACATACGATGAAATAAAGAAAAGTAAACCTGAAGAATATGA

upper sequence: GLYMA11G27410.1 (Glycine max), 3'ss of exon 24
lower sequence: GRMZM2G021846_T01 (Zea mays), 3'ss of exon 18
gttagtgtcatacttaagtttatggttgtgtacagtcatgctatttatttcacgagaaataggttgacaaatgtacacattttgacttactatctataagt-tagATACAATGGCGTGCACTTGATGAGATAAACGCAGGGGTGTGTGATG----------------------------------------------
                 || | |||||    ||  |   |   | |  || | ||    | | |    || |  |   |  |||    |||     ||  | ||||||||||||||||| ||||||||||| ||  | || ||||||||||                                              
-----------------gtatttggttac--acgatttaggagtcttcttaaagaactgttgctatgtaagtacagcaagattgctcgacttgtgttatttgtagATACAATGGCGTGCTCTTGATGAGATCAATTCTGGAGTGTGTGATGGGATGACTTATGAAGAGATAAAGAAAATCATGCCCGAGGAATTTGA

upper sequence: GLYMA11G27410.1 (Glycine max), 3'ss of exon 24
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 18
gttagtgtcatacttaagtttatggttgtgtacagtcatgctattta----tttcacgagaaataggttgacaaatgtacacattttgacttactatctataagttagATACAATGGCGTGCACTTGATGAGATAAACGCAGGGGTGTGTGATG----------------------------------------------
  |||  |   | || ||   |   | ||| | |  ||    || ||    |||     |||||  ||  | |||  |  | |  ||   ||||| |      | |||||||||||||||||||||||||||||||| || || ||||||||||                                              
--tagcttttgaatttagaaaaatttggtggataaccaacaaatctaggaatttgtgtggaaatgagtatagaaaattctataacttt-tttactttt-----ggtagATACAATGGCGTGCACTTGATGAGATAAATGCTGGAGTGTGTGATGGAATGACATATGAAGAGATAAAGAAGAACATGCCTGAGGAATACGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcacgagaaataggttgacaaatgtacacattttgacttactatctataagttagATACAATGGCGTGCACTTGATGAGATAAACGCAGGGGTGTGTGATG
                                  gacttac  putative branch site (score: 2)
                                         tatctataa  TA-rich tract