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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacccattccaccttccattgctcctcctccttttccatatgatgccaggaggctacatagtctctttgttttggtttggtctccaattctgcc...

Basic information

species Glycine max
transcript GLYMA04G39930.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G39930.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv13s0067g02990.t01 (Vitis vinifera), 5'ss of exon 4
TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacccattccaccttccattgctcctcctc-cttttccatatgatgccaggaggctaca-tagtctctttgttttggtttggtctccaattctgcc--
|||||||||||||||||||| ||||||| ||| || |||||||| ||||| || |||||||| |    | ||||   |   ||  |    |   || |||  |||      |  || | ||| || |||  |  | |   ||   |  | ||   ||    
TGGCTTGGTCTGGACAAAGATTTGAAGAAGCTGGTGGTTGAAACTACTGCAAATCAGgtaaattttttaatccaatatttgttatttgggcgagctattctttat----ttataagtcaacactattctggtaatctcaattgaattgctaaacatgtact
















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|15202905|gb|BI425673.1|BI425673
EST:     GGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|254348035|gb|GR854284.1|GR854284
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|209701874|gb|BW670515.1|BW670515
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|213596112|gb|DB977474.1|DB977474
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|16277187|gb|BI942249.1|BI942249
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGGTAT-GA
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGG-TATTGA
EST: gi|16279538|gb|BI943488.1|BI943488
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|26043898|gb|CA782221.1|CA782221
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|254327280|gb|GR836889.1|GR836889
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|254348034|gb|GR854283.1|GR854283
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|23057548|gb|BU578222.1|BU578222
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|120534042|gb|EH262175.1|EH262175
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|120493928|gb|EH222095.1|EH222095
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|15589581|gb|BI674197.1|BI674197
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|6848899|gb|AW351189.1|AW351189
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|16281250|gb|BI944390.1|BI944390
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|192323227|gb|FK017048.1|FK017048
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|14991332|gb|BI317005.1|BI317005
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|193708543|gb|FK648505.1|FK648505
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|192310848|gb|FK001552.1|FK001552
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|214008806|gb|DB986815.1|DB986815
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|120494757|gb|EH222924.1|EH222924
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAGACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCGAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|16283905|gb|BI945803.1|BI945803
EST:     GTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|17020713|gb|BM091747.1|BM091747
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|207737588|gb|GD715590.1|GD715590
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|214007882|gb|DB987812.1|DB987812
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACGAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|18692949|gb|BM521797.1|BM521797
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACGAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|120532552|gb|EH260685.1|EH260685
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|58015757|gb|CX702499.1|CX702499
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|26269206|gb|CA820269.1|CA820269
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|16276933|gb|BI942117.1|BI942117
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|16284486|gb|BI946115.1|BI946115
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCCAAATT-GGTTCCATTGCTTGGTAATGA
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACC-AAATTTGGTTCCATTGCTTGGTATTGA
EST: gi|254327281|gb|GR836890.1|GR836890
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|23059161|gb|BU578358.1|BU578358
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|120495097|gb|EH223264.1|EH223264
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCGCTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCGAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
EST: gi|209701873|gb|BW670514.1|BW670514
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAG
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacccattccaccttccattgctcctcctccttttccatatgatgccaggaggctacatagtctctttgttttggtttggtctccaattctgcc

- - - - - - - - - -  TTGAAG
- - - - - - - - - - - TGAAGA
- - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcctcc