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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaattatctgatgatgtccttgcaaaatgtctaacatttaaatataataatgacaacatttttctggttcttcagAGTCCCACTGCGTCAATAGGTTTATATGTAGATTGTGGTTCAATATATGAGAGTCCGATAAGTTTTGGGGCTACGCATCTGCTTGAACGAATGGCTTTCA

Basic information

species Glycine max
transcript GLYMA05G36040.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G36040.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv11s0016g02870.t01 (Vitis vinifera), 3'ss of exon 2
---------------------gtatgaat---tatctgatgatgtc-cttgcaaaatgtctaacatttaaat-ataataatgacaacattttt--ctggttctt-----cagAGTCCCACTGCGTCAATAGGTTTATATGTAGATTGTGGTTCAATATATGAGAGTCCGATAAGTTTTGGGGCTACGCATCTGCTTGAACGAATGGCTTTCA
                       || |||   | |||| |  |    ||||  ||   | | |  ||||  |  || | |  |      | ||   ||| | |      |||| |||  |||| |||||||| |||||||| || ||||| |||||||||||||  || ||    ||||| || || || || ||||| || ||||| ||||
gtaagtgtggctacctttataaaatcaatgcctctctgttattcctacttgtgaaggatattaagtttatgttgtactgacaaacctgctgttgattggctttctggagcagAATCCTGCTGCCTCAATAGGGTTATATGTTGACTGTGGATCAATATATGAGACACCAATCTCATTTGGAGCCACACACCTTCTTGAGCGTATGGCCTTCA
















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|213619606|gb|DB957424.1|DB957424
EST:     TTATTACTACACTCCCAAATGGACTCAAAGTGGCCTCTGAAACATCACCG                         AGTCCCACTGCGTCAATAGGTTTATATG
genomic: TTATTACTACACTCCCAAATGGACTCAAAGTGGCCTCTGAAACATCACCGgtatgaatta ... ggttcttcagAGTCCCACTGCGTCAATAGGTTTATATG
EST: gi|213593058|gb|DB966051.1|DB966051
EST:     TTATTACTACACTCCCAAATGGACTCAAAGTGGCCTCTGAGACATCACCG                         AGTCCCACTGCGTCAATAGGTTTATATGTAGATTGTGGTTCAATATATGAG
genomic: TTATTACTACACTCCCAAATGGACTCAAAGTGGCCTCTGAAACATCACCGgtatgaatta ... ggttcttcagAGTCCCACTGCGTCAATAGGTTTATATGTAGATTGTGGTTCAATATATGAG
EST: gi|209716254|gb|BW657557.1|BW657557
EST:     TTATTACTACACTCCCAAATGGACTCAAAGTGGCCTCTGAAACATCACCG                         AGTCCCACTGCGTCAATAGGTTTATATGTAGATTGTGGTTCAATATATGAG
genomic: TTATTACTACACTCCCAAATGGACTCAAAGTGGCCTCTGAAACATCACCGgtatgaatta ... ggttcttcagAGTCCCACTGCGTCAATAGGTTTATATGTAGATTGTGGTTCAATATATGAG
EST: gi|213589265|gb|DB957797.1|DB957797
EST:     TTATTACTACACTCCCAAATGGACTCAAAGTGGCCTCTGAAACATCACCG                         AGTCCCACTGCGTCAATAGGTTTATATGTAGATTGTGGTTCAATATATGAG
genomic: TTATTACTACACTCCCAAATGGACTCAAAGTGGCCTCTGAAACATCACCGgtatgaatta ... ggttcttcagAGTCCCACTGCGTCAATAGGTTTATATGTAGATTGTGGTTCAATATATGAG
EST: gi|23728935|gb|BU762540.1|BU762540
EST:     TTATTACTACACTCCCAAATGGACTCAAAGTGGCCTCTGAAACATCACCG                         AGTCCCACTGCGTCAATAGGTTTATATGTAGATTGTGGTTCAATATATGAG
genomic: TTATTACTACACTCCCAAATGGACTCAAAGTGGCCTCTGAAACATCACCGgtatgaatta ... ggttcttcagAGTCCCACTGCGTCAATAGGTTTATATGTAGATTGTGGTTCAATATATGAG
EST: gi|208077229|gb|GD876496.1|GD876496
EST:     TTATTACTACACTCCCAAATGGACTCAAAGTGGCCTCTGAAACATCACCG                         AGTCCCACTGCGTCAATAGGTTTATATGTAGATTGTGGTTCAATATATGAG
genomic: TTATTACTACACTCCCAAATGGACTCAAAGTGGCCTCTGAAACATCACCGgtatgaatta ... ggttcttcagAGTCCCACTGCGTCAATAGGTTTATATGTAGATTGTGGTTCAATATATGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcaaaatgtctaacatttaaatataataatgacaacatttttctggttcttcagAGTCCCACTGCGTCAATAGGTTTATATGTAGATTGTGGTTCAATATATGAGAGTCCGATAAGTTTTGGGGCTACGCATCTGCTTGAACGAATGGCTTTCA
        gtctaac  putative branch site (score: 2)
                                      tttttctggttcttc  putative PPT
         tctaacatttaaatat  TA-rich tract