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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactttttgttaattaaagagttggcttgaatctttcttgtgaacagccattgtttttcctagtgcaaatcattgatgtttttctgttctcattgggtgtgttacactcttctctgtgaagGTAACATCAAAGCACCTCAAAGGAGGGAAGGAAACAAAGATGGATGTTTTGGTTATGGAAAACCTTCTTTACAGGCGTAACATTAGACGACTTTATGACC

Basic information

species Glycine max
transcript GLYMA17G05000.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G05000.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv11s0016g00360.t01 (Vitis vinifera), 3'ss of exon 12
gtactttttgttaattaaagagttggcttgaatctttcttgtga-acagccattgtttttcctagtgcaaatcattgatgtttttctgttctcattgggtgtgttacactcttctctgtgaagGTAACATCAAAGCACCTCAAAGGAGGGAAGGAAACAAAGATGGATGTTTTGGTTATGGAAAACCTTCTTTACAGGCGTAACATTAGACGACTTTATGACC
            ||||      |    ||  | | |  |||||  ||   |  |  || |  |      ||||  |  | ||  |||| |  | |||   ||| |       | ||| ||||||| ||||||||||| || ||||||||||| ||| ||||||||||||||||||| ||||| || ||||||||||||||||| |||| ||| ||||||||||
------------aattcctctat-aattttcaccatatttgtgttactttctctcattcttttgacatcaatc--tagtcttgatctgcttcctttgttggtggt-------tgtct-tgaagGTTACATCAAAGCAACTTAAAGGAGGGAAAGAATCAAAGATGGATGTTTTGGTAATGGAGAATCTTCTTTACAGGCGTAATATTACACGGCTTTATGACC
















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|17152856|gb|BM142789.1|BM142789
EST:     TCAGTACAGGGAGTCCAACTTGTCTTGCAAAGATCTTGGGCATTTATCAG                         GTAACATCAAAGCACCTCAAAGGAGGGAAGGAAACAAAGATGGATGTTTTG
genomic: TCAGTACAGGGAGTCCAACTTGTCTTGCAAAGATCTTGGGCATTTATCAGgtactttttg ... ctctgtgaagGTAACATCAAAGCACCTCAAAGGAGGGAAGGAAACAAAGATGGATGTTTTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatcattgatgtttttctgttctcattgggtgtgttacactcttctctgtgaagGTAACATCAAAGCACCTCAAAGGAGGGAAGGAAACAAAGATGGATGTTTTGGTTATGGAAAACCTTCTTTACAGGCGTAACATTAGACGACTTTATGACC
    cattgat  putative branch site (score: 4)
                                   ttacactcttctct  putative PPT
         atgttttt  TA-rich tract