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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactttttgttaattaagagttggcttgaatctttcttgtgaacaaccattgtttttcctagtgcaaatcattgatgtttttctgttctcattgggtgtggttttgtcttctccgtgaagGTAACATCAAAGCACCTCAAAGGAGGGAAGGAAACAAAGATGGATGTTTTGGTTATGGAAAATCTTCTTTACAGGCGTAACATTAGACGGCTTTATGATC

Basic information

species Glycine max
transcript GLYMA13G17510.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G17510.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv11s0016g00360.t01 (Vitis vinifera), 3'ss of exon 12
gtactttttgttaattaagagttggcttgaatctttcttgtga-acaaccattgtttttcctagtgcaaatcattgatgtttttctgttctcattgggtgtggttttgtcttctccgtgaagGTAACATCAAAGCACCTCAAAGGAGGGAAGGAAACAAAGATGGATGTTTTGGTTATGGAAAATCTTCTTTACAGGCGTAACATTAGACGGCTTTATGATC
            ||||      |   ||  | | |  |||||  ||   |  |  || |  |      ||||  |  | ||  |||| |  | |||   ||||||  ||||      ||||||| ||||||||||| || ||||||||||| ||| ||||||||||||||||||| ||||| |||||||||||||||||||| |||| |||||||||||| |
------------aattcctctataattttcaccatatttgtgttactttctctcattcttttgacatcaatc--tagtcttgatctgcttcctttgttggtggtt--gtct------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|11412624|gb|BF424635.1|BF424635
EST:     GGATTTATCAG                         GTAACATCAAAGCACCTCAAAGGAGGGAAGGAAACAAAGATGGATGTTTTG
genomic: GGATTTATCAGgtactttttg ... ctccgtgaagGTAACATCAAAGCACCTCAAAGGAGGGAAGGAAACAAAGATGGATGTTTTG
EST: gi|192332689|gb|FK025346.1|FK025346
EST:     TCAGTACAGGAAGTCCAACTTGTCTTGCGAAGATCTTGGGGATTTATCAG                         GTAACATCAAAGCACCTCAAAGGAGGGAAGGAAACAAAGATGGATGTTTTG
genomic: TCAGTACAGGAAGTCCAACTTGTCTTGCGAAGATCTTGGGGATTTATCAGgtactttttg ... ctccgtgaagGTAACATCAAAGCACCTCAAAGGAGGGAAGGAAACAAAGATGGATGTTTTG
EST: gi|193479586|gb|FK443769.1|FK443769
EST:     TACAGGAAGTCCAACTTGTCTTGCGAAGATCTTGGGGATTTATCAG                         GTAACATCAAAGCACCTCAAAGGAGGGAAGGAAACAAAGATGGATGTTTTG
genomic: TACAGGAAGTCCAACTTGTCTTGCGAAGATCTTGGGGATTTATCAGgtactttttg ... ctccgtgaagGTAACATCAAAGCACCTCAAAGGAGGGAAGGAAACAAAGATGGATGTTTTG
EST: gi|18040859|gb|BM309153.1|BM309153
EST:     TCAGTACAGGAAGTCCAACTTGTCTTGCGAAGATCTTGGGGATTTATCAG                         GTAACATCAAAGCACCTCAAAGGAGGGAAGGAAACAAAGATGGATGTTTTG
genomic: TCAGTACAGGAAGTCCAACTTGTCTTGCGAAGATCTTGGGGATTTATCAGgtactttttg ... ctccgtgaagGTAACATCAAAGCACCTCAAAGGAGGGAAGGAAACAAAGATGGATGTTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatcattgatgtttttctgttctcattgggtgtggttttgtcttctccgtgaagGTAACATCAAAGCACCTCAAAGGAGGGAAGGAAACAAAGATGGATGTTTTGGTTATGGAAAATCTTCTTTACAGGCGTAACATTAGACGGCTTTATGATC
    cattgat  putative branch site (score: 4)
                                    ttttgtcttctccgt  putative PPT
         atgttttt  TA-rich tract