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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtcatttactccacccttttctcattagttttggtattgtcttgttttgaataaatcatttttaaatgattaaattgcttttgttggatttttagGGACCTGAACTTTTAAATAAATATGTTGGAGAAAGTGAGCTTGCAGTTCGTACAATGTTTAGCCGTGCAAGGACATGTGCGCCTTGCATACTTTTTTTTG

Basic information

species Glycine max
transcript GLYMA08G19920.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G19920.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G01610.1 (Arabidopsis thaliana), 3'ss of exon 4
gtcagtcatttactccacccttttctcattagttttgg-tattgtcttgt-tttgaataaatcatttttaaatgattaaattgctttt---gttggatttttagGGACCTGAACTTTTAAATAAATATGTTGGAGAAAGTGAGCTTGCAGTTCGTACAATGTTTAGCCGTGCAAGGACATGTGCGCCTTGCATACTTTTTTTTG
             |  ||  |    |||    || ||  | |||  |||| |||||||    ||   | |  |||||   |  ||| |   |||||  ||| ||||  | |||||| |||||||||| ||||||||||||||||||||  |||||||  |||||   || ||  |||||||||| || ||  || | || ||||
-----------gtttgactttcacgtcagattttatgaatgttgctttgtatttgaatggtccaaaataatgtgattttctctcttctatcgttgggctttcagGGTGCCGAACTTCTAAATAAATACGTTGGAGAAAGTGAGCTTGCTATTCGTACGTTGTTTCAGCGAGCTCGGACATGTGCACCATGTGTAATCTTCTTTG

upper sequence: GLYMA08G19920.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv01s0010g02600.t01 (Vitis vinifera), 3'ss of exon 4
-gtcagtcatttactccacccttttctcattagttttggtattgtcttgttttgaa--taaatcatttttaaatgattaaattgcttttgttggatttttagGGACCTGAACTTTTAAATAAATATGTTGGAGAAAGTGAGCTTGCAGTTCGTACAATGTTTAGCCGTGCAAGGACATGTGCGCCTTGCATACTTTTTTTTG
  |  | | | |     |        |  |    |      ||  ||| |||||||  | ||  || ||||| |   | ||||    ||| ||  |  |||||| ||||||||| | |||||||||||||||||||||||||| |||||| | ||  | ||||| || |||||||||||| | || |||||||| |||||||
gttttgccttctttgatagaagaagtttgtcttgtgcatgttttccttattttgaagtttaaaaatctttaagttcatgaatt----ttgctgactggttagGGCCCTGAACTTCTGAATAAATATGTTGGAGAAAGTGAGCTGGCAGTTAGGACGCTATTTAGTCGAGCAAGGACATGTTCTCCATGCATACTATTTTTTG
















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|308099144|gb|HO760985.1|HO760985
EST:     TTGCCAAAGCTGTTGCCAATGAGGCAGGGGCTACTTTTATTCATATTAAG                         GGACCTGAACTTTTA
genomic: TTGCCAAAGCTGTTGCCAATGAGGCAGGGGCTACTTTTATTCATATTAAGgtcagtcatt ... ggatttttagGGACCTGAACTTTTA
EST: gi|27809133|gb|CB063555.1|CB063555
EST:     TTGCCAAAGCTGTTGCCAATGAGGCAGGGGCTACTTTTATTCATATTAAG                         GGACCTGAACTTTTAAATAAATATGTTGGAGAAAGTGAGCTTGCAGTTCGT
genomic: TTGCCAAAGCTGTTGCCAATGAGGCAGGGGCTACTTTTATTCATATTAAGgtcagtcatt ... ggatttttagGGACCTGAACTTTTAAATAAATATGTTGGAGAAAGTGAGCTTGCAGTTCGT
EST: gi|192294149|gb|FG986238.1|FG986238
EST:     TTGCCAAAGCTGTTGCCAATGAGGCAGGGGCTACTATTATTCATATTAAG                         GGACCTGAACTTTTAAATAAATATGTTGGAGAAAGTGAGCTTGCAGTTCGT
genomic: TTGCCAAAGCTGTTGCCAATGAGGCAGGGGCTACTTTTATTCATATTAAGgtcagtcatt ... ggatttttagGGACCTGAACTTTTAAATAAATATGTTGGAGAAAGTGAGCTTGCAGTTCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgttttgaataaatcatttttaaatgattaaattgcttttgttggatttttagGGACCTGAACTTTTAAATAAATATGTTGGAGAAAGTGAGCTTGCAGTTCGTACAATGTTTAGCCGTGCAAGGACATGTGCGCCTTGCATACTTTTTTTTG
                                                ttttt  CT-rich tract
     tttgaataaatcattt  TA-rich tract