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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagaaatgcttatttttgtttttattgaattgaattactaaagcactttgacctgtagcttctaacctgagaaatactttgttgcagAGGGGTAAGGTACCATGAACCTGAGTACTGGAAATTTGGAGAGGCTGGAAACAGGTACTTCCGTCATGCCACAGGGCAGTTGTATGCCATTTCGAATGAT

Basic information

species Glycine max
transcript GLYMA12G10520.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G10520.1 (Glycine max), 3'ss of exon 8
lower sequence: AT2G32430.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgagaaatgcttatttttgtttttattgaattgaattactaaagcactttgacctgtagcttctaacctgagaaatactt-tgttgcagAGGGGTAAGGTACCATGAACCTGAGTACTGGAAATTTGGAGAGGCTGGAAACAGGTACTTCCGTCATGCCACAGGGCAGTTGTATGCCATTTCGAATGAT
       ||  |    ||| | |   ||   ||   ||  | || | ||||  |   |   || ||||        |   | ||  ||||||| || || |||||||| |||||||| ||||||||||| |||  |||||||| |||||||||||| || || || ||||| || |||||||| |  || 
-----gtataatcccatttctctcacttacctt--ctttttgaatctctttctcagttttgttttaactcacattttgtctatggagcagAGGAGTTAGATACCATGAGCCTGAGTATTGGAAATTTGGTGAGAATGGAAACAAGTACTTCCGTCACGCTACTGGACAGTTATACGCCATTTCTAGAGAC

upper sequence: GLYMA12G10520.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G05170.2 (Arabidopsis thaliana), 3'ss of exon 8
gtgagaaatgcttatttttgtttttattgaattgaattactaaagcactttgacctgtagcttctaacctgagaaatactttgttgcagAGGGGTAAGGTACCATGAACCTGAGTACTGGAAATTTGGAGAGGCTGGAAACAGGTACTTCCGTCATGCCACAGGGCAGTTGTATGCCATTTCGAATGAT
    | || || | ||   ||||        |   || | |   | | | |    |||    ||     ||     |  | ||  |||||||||| ||||||||||| || ||||||||||| ||||| ||   ||| ||||  |||||||||||||| || || ||||| || |||||||| |  || 
----gtaaagcatcttccagtttcctcct--tcatatcaattttgtattct----tgttaagtcatctttg-----ttttatggagcagAGGGGTGAGGTACCATGAGCCAGAGTACTGGAAGTTTGGTGAAAATGGGAACAAATACTTCCGTCATGCTACTGGACAGTTATACGCCATTTCAAGGGAC

upper sequence: GLYMA12G10520.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv12s0059g00640.t01 (Vitis vinifera), 3'ss of exon 8
gtgagaaatgcttatttttgtttttattgaattgaattactaaagcactttgacctgtagcttctaacctgagaaatactttgttgcagAGGGGTAAGGTACCATGAACCTGAGTACTGGAAATTTGGAGAGGCTGGAAACAGGTACTTCCGTCATGCCACAGGGCAGTTGTATGCCATTTCGAATGAT
        |   |   ||| |||  ||||  |||  |   | || |  |||      ||| |||| |  ||   |    |||||  ||| || || || ||||||||||| ||||| ||||||||||| ||||| |||||||  || |||||||| || ||||| ||| | ||||||||||| || |||
-------gtaagtgactttctttagattgttttggttacgtgaaactgtttagttcttagtttcttatttgtccatatttttgtaacagGGGAGTGAGATACCATGAACCCGAGTATTGGAAATTTGGTGAGGCAGGAAACAAATATTTCCGTCACGCTACAGGACAGCTATATGCCATTTCAAAAGAT

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|13181561|gb|BG352901.1|BG352901
EST:     CCACGGATATACATTGGATGCATGAAATCTGGGCCTGTCCTATCCCAAAA                         AGGGGTAAGGTACCATGAACCTGAGTACTGGAAATTTGGAGAGGCTGGAAA
genomic: CCACGGATATACATTGGATGCATGAAATCTGGGCCTGTCCTATCCCAAAAgtgagaaatg ... tttgttgcagAGGGGTAAGGTACCATGAACCTGAGTACTGGAAATTTGGAGAGGCTGGAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattactaaagcactttgacctgtagcttctaacctgagaaatactttgttgcagAGGGGTAAGGTACCATGAACCTGAGTACTGGAAATTTGGAGAGGCTGGAAACAGGTACTTCCGTCATGCCACAGGGCAGTTGTATGCCATTTCGAATGAT
                           ttctaac  putative branch site (score: 1)
                                            ctttgtt  putative PPT
                                       aaatacttt  TA-rich tract