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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acttgtttgctggaggcttctttttcccatcaattaaattatcctcaatgactattgtattatgtttgtgaacccctcttctttggcttgatttgttcagGTCATTAGACATTTTGATGGTTGCAAGGCTGACCTAGTTGTGTGTGATGGTGCGCCTGATG

Basic information

species Glycine max
transcript GLYMA15G07970.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G07970.2 (Glycine max), 3'ss of exon 6
lower sequence: AT5G01230.2 (Arabidopsis thaliana), 3'ss of exon 6
---------------acttgtttgctggaggcttct-----ttttcccatcaattaaattatcctcaatgactattgtattatgtttgtgaacccctcttctttggcttgatttgttcagGTCATTAGACATTTTGATGGTTGCAAGGCTGACCTAGTTGTGTGTGATGGTGCGCCTGATG---------------------------------------
                | | | |  |  |   ||||     | || |   |  || |||||| ||  | |  | | || || | |   ||  |    ||| |  ||  |  ||| |  ||||||||||||| ||||| || ||||| || ||||| ||||| ||||||||||| || ||||                                       
gtaaaatttctcgactcctatctcataaatttttctacatctctttcttcctctttaattatgcttcaagtttgt-gt-ttgtttccatgg-cttaccttttccggtgttttttttcaagGTCATTAGACACTTTGACGGCTGCAAAGCGGACCTGGTTGTCTGTGATGGTGCTCCAGATGGTAAAACAGTAGATAAAGTGTCTGTCTCGCCGTTCAATA

upper sequence: GLYMA15G07970.2 (Glycine max), 3'ss of exon 6
lower sequence: AT5G01230.1 (Arabidopsis thaliana), 3'ss of exon 6
---------------acttgtttgctggaggcttct-----ttttcccatcaattaaattatcctcaatgactattgtattatgtttgtgaacccctcttctttggcttgatttgttcagGTCATTAGACATTTTGATGGTTGCAAGGCTGACCTAGTTGTGTGTGATGGTGCGCCTGATG
                | | | |  |  |   ||||     | || |   |  || |||||| ||  | |  | | || || | |   ||  |    ||| |  ||  |  ||| |  ||||||||||||| ||||| || ||||| || ||||| ||||| ||||||||||| || ||||
gtaaaatttctcgactcctatctcataaatttttctacatctctttcttcctctttaattatgcttcaagtttgt-gt-ttgtttccatgg-cttaccttttccggtgttttttttcaagGTCATTAGACACTTTGACGGCTGCAAAGCGGACCTGGTTGTCTGTGATGGTGCTCCAGATG

upper sequence: GLYMA15G07970.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv08s0007g01960.t01 (Vitis vinifera), 3'ss of exon 5
--acttgtttgctgga--ggcttctttttcccatcaattaaattatcctcaatgactattgtattatgtttgtgaacccctcttctttggcttgatttgttcagGTCATTAGACATTTTGATGGTTGCAAGGCTGACCTAGTTGTGTGTGATGGTGCGCCTGATG
  | |||| ||||        |  ||||| |  ||| ||   ||   ||   | |  ||  ||| || |      | || | ||  |   |||   || ||||||||||||| ||||||||||| |||||||||||||| ||||||||||||||||| |||||||
gtatttgtgtgctattttaaatcatttttgctctcagtt---tttggctgtgtaaaaatgatat-atctgacattatccttatttatcatcttctgttcttcagGTCATTAGGCATTTTGATGGATGCAAGGCTGACCTGGTTGTGTGTGATGGTGCTCCTGATG

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|7926380|gb|AW832406.1|AW832406
EST:     GTGTCATCCAGGTGCAGGGTGATATAACTAACGCTCGGACAGCTGAAGTG                         GTCATTAGACATTTTGATGGTTGCAAGGCTGACCTAGTTGTGTGTGATGGT
genomic: GTGTCATCCAGGTGCAGGGTGATATAACTAACGCTCGGACAGCTGAAGTGgtatatacag ... atttgttcagGTCATTAGACATTTTGATGGTTGCAAGGCTGACCTAGTTGTGTGTGATGGT
EST: gi|193323195|gb|FK291587.1|FK291587
EST:     GTGTCATCCAGGTGCAGGGTGATATAACTAACGCTCGGACAGCTGAAGTG                         GTCATTAGACATTTTGATGGTTGCAAGGCTGACCTAGTAGTGTGTGATGGT
genomic: GTGTCATCCAGGTGCAGGGTGATATAACTAACGCTCGGACAGCTGAAGTGgtatatacag ... atttgttcagGTCATTAGACATTTTGATGGTTGCAAGGCTGACCTAGTTGTGTGTGATGGT
EST: gi|151411265|gb|EV281076.1|EV281076
EST:     GTGTCATCCAGGTGCAGGGTGATATAACTAACGCTCGGACAGCTGAAGTG                         GTCATTAGACATTTTGATGGTTGCAAGGCTGACCTAGTTGTGTGTGATGGT
genomic: GTGTCATCCAGGTGCAGGGTGATATAACTAACGCTCGGACAGCTGAAGTGgtatatacag ... atttgttcagGTCATTAGACATTTTGATGGTTGCAAGGCTGACCTAGTTGTGTGTGATGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatgactattgtattatgtttgtgaacccctcttctttggcttgatttgttcagGTCATTAGACATTTTGATGGTTGCAAGGCTGACCTAGTTGTGTGTGATGGTGCGCCTGATG
                                        gcttgat  putative branch site (score: 5)
                                              tttgttc  CT-rich tract
       tattgtattatgttt  TA-rich tract