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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGTTGCAGCTGGGGCCAACCCTGTGCTCATCACCCGGGGCATTGAGAAGACGGCAAAAGCTCTTGTTTCTGAGCTTAAACTGATGTCAAAAGAGgtgaagcatttttctacttattgttgaaataccaaacattgttgtgtgtctataagcatgattattacatggggtactaaaaatttcccaatttttaatatattttagtgctccgttactaattcattaatttgcttatctttttgttgagacttgatatgtggttgggtggattgcag

Basic information

species Glycine max
transcript GLYMA15G40110.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G40110.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 5
GTTGTTGCAGCTGGGGCCAACCCTGTGCTCATCACCCGGGGCATTGAGAAGACGGCAAAAGCTCTTGTTTCTGAGCTTAAACTGATGTCAAAAGAGgt----gaagcatttttctacttattgttgaaataccaaacattgttgtgtgtctataagcatgattattacatggggtactaaaaatttcccaatttttaatatattttagtgc-tccgttactaattcattaatttgcttatctttttgttgagacttgatatgtggttgggtggattgcag
|| || |||||||| || |||||||| || ||||| || ||||||||||||||  ||||| |||| ||  |||||||||| ||||| |||||||||||    ||   ||  |  | |    | |||   |     | | |  ||| | |     ||  | |   | |  ||   |  ||||| ||     ||||||| | |  | |||    ||    |   |  || |||| || | |||                                       
GTGGTAGCAGCTGGTGCAAACCCTGTTCTAATCACTCGAGGCATTGAGAAGACCACAAAATCTCTAGTGGCTGAGCTTAAGCTGATATCAAAAGAGgtaattgagaaatactatttcaaggtcttgcgttgattgagaattatgtctctagtctagtcttaagttcatttgaaattttaaaagttc----atttttacttttatctagaatgtctaggatctaaacagtaatatggt-atcacag-----------------------------------
















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|208298329|gb|GE089722.1|GE089722
EST:     AGAAGACGGCAAAAGCTCTTGTTTCTGAGCTTAAACTGATGTCAAAAGAG                         GTTGAAGATAGTGAGTTGGCAGATG
genomic: AGAAGACGGCAAAAGCTCTTGTTTCTGAGCTTAAACTGATGTCAAAAGAGgtgaagcatt ... tggattgcagGTTGAAGATAGTGAGTTGGCAGATG
EST: gi|208224371|gb|GE028052.1|GE028052
EST:     AGAAGACGGCAAAAGCTCTTGTTTCTGAGCTTAAACTGATGTCAAAAGAG                         GTTGAAGATAGTGAGTTGGCAGATGTGGCAGCAGTCAGTGCTGGGAACAAT
genomic: AGAAGACGGCAAAAGCTCTTGTTTCTGAGCTTAAACTGATGTCAAAAGAGgtgaagcatt ... tggattgcagGTTGAAGATAGTGAGTTGGCAGATGTGGCAGCAGTCAGTGCTGGGAACAAT
EST: gi|209696896|gb|BW660461.1|BW660461
EST:     CGGCAAAAGCTCTTGTTTCTGAGCTTAAACTGATGTCAAAAGAG                         GTTGAAGATAGTGAGTTGGCAGATGTGGCAGCAGTCAGTGCTGGGAACAAT
genomic: CGGCAAAAGCTCTTGTTTCTGAGCTTAAACTGATGTCAAAAGAGgtgaagcatt ... tggattgcagGTTGAAGATAGTGAGTTGGCAGATGTGGCAGCAGTCAGTGCTGGGAACAAT
EST: gi|208031207|gb|GD829805.1|GD829805
EST:     AGAAGACGGCAAAAGCTCTTGTTTCTGAGCTTAAACTGATGTCAAAAGAG                         GTTGAAGATAGTGAGTTGGCAGATGTGGCAGCAGTCAGTGCTGGGAACAAT
genomic: AGAAGACGGCAAAAGCTCTTGTTTCTGAGCTTAAACTGATGTCAAAAGAGgtgaagcatt ... tggattgcagGTTGAAGATAGTGAGTTGGCAGATGTGGCAGCAGTCAGTGCTGGGAACAAT
EST: gi|24135545|gb|BU926055.1|BU926055
EST:     TGATGTCAAAAGAG                         GTTGAAGATAGTGAGTTGGCAGATGTGGCAGCAGTCAGTGCTGGGAACAAT
genomic: TGATGTCAAAAGAGgtgaagcatt ... tggattgcagGTTGAAGATAGTGAGTTGGCAGATGTGGCAGCAGTCAGTGCTGGGAACAAT
EST: gi|24136477|gb|BU926987.1|BU926987
EST:     AGAAGACGGCAAAAGCTCTTGTTTCTGAGCTTAAACTGATGTCAAAAGAG                         GTTGAAGATAGTGAGTTGGCAGATGTGGCAGCAGTCAGTGCTGGGAACAAT
genomic: AGAAGACGGCAAAAGCTCTTGTTTCTGAGCTTAAACTGATGTCAAAAGAGgtgaagcatt ... tggattgcagGTTGAAGATAGTGAGTTGGCAGATGTGGCAGCAGTCAGTGCTGGGAACAAT
EST: gi|208042039|gb|GD839961.1|GD839961
EST:     AGAAGACGGCAAAAGCTCTTGTTTCTGAGCTTAAACTGATGTCAAAAGAG                         GTTGAAGATAGTGAGTTGGCAGATGTGGCAGCAGTCAGTGCTGGGAACAAT
genomic: AGAAGACGGCAAAAGCTCTTGTTTCTGAGCTTAAACTGATGTCAAAAGAGgtgaagcatt ... tggattgcagGTTGAAGATAGTGAGTTGGCAGATGTGGCAGCAGTCAGTGCTGGGAACAAT
EST: gi|193312321|gb|FK276091.1|FK276091
EST:     AGAAGACGGCAAAAGCTCTTGTTTCTGAGCTTAAACTGATGTCAAAAGAG                         GTTGAAGATAGTGAGTTGGCAGATGTGGCAGCAGTCAGTGCTGGGAACAAT
genomic: AGAAGACGGCAAAAGCTCTTGTTTCTGAGCTTAAACTGATGTCAAAAGAGgtgaagcatt ... tggattgcagGTTGAAGATAGTGAGTTGGCAGATGTGGCAGCAGTCAGTGCTGGGAACAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTGTTGCAGCTGGGGCCAACCCTGTGCTCATCACCCGGGGCATTGAGAAGACGGCAAAAGCTCTTGTTTCTGAGCTTAAACTGATGTCAAAAGAGgtgaagcatttttctacttattgttgaaataccaaacattgttgtgtgtctataagcatgattattacatggggtactaaaaatttcccaatttttaatatattttagtgctccgttactaattcattaatttgcttatctttttgttgagacttgatatgtggttgggtggattgcag

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