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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACGTCCTAAAGGTGTAACACCTAAATACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgccttataaacttctctatttggttttgttttgttttggcattcctgacacctccttttttattgctggatttactctttattcattgtcattttctcttgatatag

Basic information

species Glycine max
transcript GLYMA08G17600.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G17600.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv19s0085g00370.t01 (Vitis vinifera), 5'ss of exon 2
GGACGTCCTAAAGGTGTAACACCTAAATACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgccttataaacttctctatttggttttgttttgttttggcattcctgacacctccttttttattgctggatttactctttattcattgtcattttctcttgatatag
|| || || || ||||| |||||||| ||||| ||||| ||||||||||||||||||||| ||||||| ||| ||||||| ||  ||||   ||  | | | ||   |||||||||| |  ||  |||||    |    |   ||   || | | |||       | || |  ||| |  ||  ||   
GGGCGCCCAAAGGGTGTTACACCTAAGTACAGCTTGAAACCTCTTGTGCCAAGGCTGTCTGAACTTCTTGGAGTTGAGgtttgt-ttattccctaatatttctg---ttgttttgttatt-caaacctgat---ttggctggcatgaatgtactcacttggatgacttttttgtttgcctttactag--
















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|209709349|gb|BW678893.1|BW678893
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|207776090|gb|GD747731.1|GD747731
EST:     CCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: CCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|207754681|gb|GD729304.1|GD729304
EST:     CAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: CAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|209714549|gb|BW662212.1|BW662212
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|298198247|gb|HO039786.1|HO039786
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCACAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|193365334|gb|FK332723.1|FK332723
EST:     TGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: TGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|24206138|gb|BU965391.1|BU965391
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|208209100|gb|GE003090.1|GE003090
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|213610576|gb|DB960615.1|DB960615
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|213590392|gb|DB971540.1|DB971540
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|5606888|gb|AI900986.1|AI900986
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|8402320|gb|BE057954.1|BE057954
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|213589598|gb|DB965814.1|DB965814
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|298165436|gb|HO011485.1|HO011485
EST:     ACAGTTTGAAGCCTTTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|151412432|gb|EV282244.1|EV282244
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|192295471|gb|FG987085.1|FG987085
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|213608836|gb|DB957200.1|DB957200
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|213610262|gb|DB962932.1|DB962932
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|209721583|gb|BW671724.1|BW671724
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|21600463|gb|BQ610794.1|BQ610794
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|16347493|gb|BI973088.1|BI973088
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGNGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|254341877|gb|GR853014.1|GR853014
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|298188541|gb|HO035234.1|HO035234
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
EST: gi|15661932|gb|BI699303.1|BI699303
EST:     ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAG                         GTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA
genomic: ACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgcctta ... cttgatatagGTTACGATGGCAAATGACTCTATTGGGGAGGAAGTTGAGAAGTTGGTTGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGACGTCCTAAAGGTGTAACACCTAAATACAGTTTGAAGCCTCTTGTGCCAAGGCTGTCTCAACTTCTCGGAATTGAGgtgtgccttataaacttctctatttggttttgttttgttttggcattcctgacacctccttttttattgctggatttactctttattcattgtcattttctcttgatatag

- - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - TGAAGC