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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTACTTCTAGGGGATTTGCTGAGGAGGATTTTGTTATGGTGGCAGAGTTTTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaatcttcaatatcctttgagtttgtgtttgttttatctggacactgttggtttgagttgctgagggttgctaagtgcttgaataaactaatatatagttgctgattaatttattttaatcag

Basic information

species Glycine max
transcript GLYMA09G33480.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G33480.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv00s0211g00120.t01 (Vitis vinifera), 5'ss of exon 14
CTTACTTCTAGGGGATTTGCTGAGGAGGATTTTGTTATGGTGGCAGAGTTTTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaatctt-caatat---cctttgagtttgtgttt----gttttatctggacactgttggtttg----agttgctgagggttgc-taagtgcttgaataaactaatatatagttgct--gattaatttattttaatcag
||||||||||| ||||||| |||||||||||||||||  || ||||| |  ||||| || ||||| |   | || |||||||||||| | || || | ||||    ||||  |  | |||    || |   || |||         | ||||||  |||      |||     |  || |   |   || |   |||||||||  |||||||    ||| ||  | ||  ||  |   |  |||
CTTACTTCTAGAGGATTTGTTGAGGAGGATTTTGTTAAAGTAGCAGAATACTTTGACGCTGCTGTGACCGTGGCAGTGAAGATCAAGGCTGAAACTACAGgtcttaaaattctatagtatatttctcttgcttagtgagccaagagtctatctgatcaccaccactttagcaaatatgtttgtgacagcctccatgcttgaatttactaatactaggtttctatgtttggttcttgcaacccag
















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|208143264|gb|GD941078.1|GD941078
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|208149858|gb|GD949864.1|GD949864
EST:     GATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: GATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|193392884|gb|FK359660.1|FK359660
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTA
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAA-TTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTA
EST: gi|208217259|gb|GE008655.1|GE008655
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCAACAATTCAGTCATCTTCTTACTTT
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCA-CAATTCAGTCATCTTCTTACTTT
EST: gi|193330448|gb|FK292748.1|FK292748
EST:     AGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: AGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|207753907|gb|GD724303.1|GD724303
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|193305610|gb|FK270967.1|FK270967
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|193667699|gb|FK613031.1|FK613031
EST:     TTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: TTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|208165351|gb|GD964459.1|GD964459
EST:     TTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: TTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|193670163|gb|FK613197.1|FK613197
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAGAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|208062781|gb|GD861069.1|GD861069
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|208298055|gb|GE091030.1|GE091030
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGG
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGG
EST: gi|193316691|gb|FK281931.1|FK281931
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTA
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTA
EST: gi|193364197|gb|FK331767.1|FK331767
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GNTCAAAATTGAAGGACTT
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTT
EST: gi|207716444|gb|GD699444.1|GD699444
EST:     TTTTGATGCAGCTGTAGATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|207827493|gb|GD800730.1|GD800730
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|208293963|gb|GE092564.1|GE092564
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|193403630|gb|FK369884.1|FK369884
EST:     TTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAAGAGACAAA-G                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTA
genomic: TTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCA-GAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTA
EST: gi|208116968|gb|GD915838.1|GD915838
EST:     AAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: AAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|207847966|gb|GD817829.1|GD817829
EST:     GATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: GATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|193396652|gb|FK364562.1|FK364562
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GNTCAAA-TTGAAGGACTTCT-GGCCACAATTCAGTCATCTTCTTAC
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTAC
EST: gi|193633764|gb|FK582412.1|FK582412
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|193433712|gb|FK400606.1|FK400606
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|22931030|gb|BU548169.1|BU548169
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|193667155|gb|FK610947.1|FK610947
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GNTCAAAATTGAAGGACTTCT-GGCCACAATTCAGTCAT
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCAT
EST: gi|193445447|gb|FK411628.1|FK411628
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|193519974|gb|FK472365.1|FK472365
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|193543612|gb|FK502077.1|FK502077
EST:     TTTGATGCAGCTGTTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: TTTGATGCAGCTG-TAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|193381576|gb|FK348903.1|FK348903
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GNTCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTA
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTA
EST: gi|208073638|gb|GD872791.1|GD872791
EST:     GAAGATCAAGTCTAGTAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTT
genomic: GAAGATCAAGTC-AG-AGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTT
EST: gi|208154360|gb|GD955413.1|GD955413
EST:     CAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: CAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|193538384|gb|FK496749.1|FK496749
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|207799507|gb|GD769262.1|GD769262
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|193565046|gb|FK517963.1|FK517963
EST:     GATGCAGTCTTGTTAAATTTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: GATGCAG-C-TG-TAAA-TTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|208043390|gb|GD840108.1|GD840108
EST:     GATGCAGTCTTGTTAAATTTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: GATGCAG-C-TG-TAAA-TTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
EST: gi|193467306|gb|FK434379.1|FK434379
EST:     TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAG                         GATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC
genomic: TTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaat ... ttttaatcagGATCAAAATTGAAGGACTTCTTGGCCACAATTCAGTCATCTTCTTACTTTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTACTTCTAGGGGATTTGCTGAGGAGGATTTTGTTATGGTGGCAGAGTTTTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTCAGAGACAAAAGgttcctaaatcttcaatatcctttgagtttgtgtttgttttatctggacactgttggtttgagttgctgagggttgctaagtgcttgaataaactaatatatagttgctgattaatttattttaatcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA