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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACACAGTGAAGCTGATCAGTGCCGAAGGTTTTGAATTTGTGGTCGACAAAGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttattatattttattatattatattacccccttttctctgcaattagggttccaagtttcaaaattataataataatttctttgatag

Basic information

species Glycine max
transcript GLYMA13G41410.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G41410.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv06s0004g05560.t01 (Vitis vinifera), 5'ss of exon 1
GACACAGTGAAGCTGATCAGTGCCGAAGGTTTTGAATTTGTGGTCGACAAAGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttattatattttattatattatattacccccttttctctgcaatt-------agggttccaagtttcaaaattataataataatttctttgatag-
||||| |||||||||||||| || || || || ||||| ||| |||||||    ||||| |||||||| |||||||| |  |||||||| |||||||| |||   ||    | ||||||| | |              | ||    ||         | ||    || ||  |   ||  |       ||| ||| ||   
GACACTGTGAAGCTGATCAGCGCAGAGGGCTTCGAATTCGTGATCGACAAGAGGGCTGCCATGGTTTCTCAGACCATCCGGAACATGCTCACTTCTCCCGgtatatttccgt-ttttattttctcgagacgattaggctactagaaaacgtaggaaaaaggaaagaaattaaattcttgaatcggaggtttattttattta
















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|19346594|gb|BM891474.1|BM891474
EST:     CAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: CAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|209716404|gb|BW657499.1|BW657499
EST:     AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|213615147|gb|DB963359.1|DB963359
EST:     AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|209704051|gb|BW673651.1|BW673651
EST:     AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|16276001|gb|BI941626.1|BI941626
EST:     AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|31465164|gb|CD407192.1|CD407192
EST:     AGAAGCTGCAATGGTTTCACAGACCATACATTACATGCTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|298167118|gb|HO010557.1|HO010557
EST:     AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|24205228|gb|BU964481.1|BU964481
EST:     AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|192302178|gb|FG996600.1|FG996600
EST:     AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|31456662|gb|CD398690.1|CD398690
EST:     AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|7639957|gb|AW734268.1|AW734268
EST:     AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|192323451|gb|FK017092.1|FK017092
EST:     AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|31467068|gb|CD409096.1|CD409096
EST:     AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|21602717|gb|BQ613048.1|BQ613048
EST:     AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|151407442|gb|EV277257.1|EV277257
EST:     AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|209704052|gb|BW673652.1|BW673652
EST:     AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|208288809|gb|GE086614.1|GE086614
EST:     AGAAGCTGCAATGGTTTCACAGACCATACATAACATACTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTT-CCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|213603156|gb|DB981024.1|DB981024
EST:     AGAAGCTGCAATTGTTTCACAGACCATACATAACATGCTTACTGCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|19270875|gb|BM887131.1|BM887131
EST:     AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|151394522|gb|EV264393.1|EV264393
EST:     AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
EST: gi|298175559|gb|HO018270.1|HO018270
EST:     AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAG                         GGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA
genomic: AGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttatt ... tctttgatagGGAGTTTCGCTGAGAGGCAGCACGGCGAAGTTACCTTTCCTGAGATCAGCA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACACAGTGAAGCTGATCAGTGCCGAAGGTTTTGAATTTGTGGTCGACAAAGAAGCTGCAATGGTTTCACAGACCATACATAACATGCTTACTTCTCCAGgttcgttattatattttattatattatattacccccttttctctgcaattagggttccaagtttcaaaattataataataatttctttgatag

- - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC