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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCCCAGAAAAGTTGCCAAATTATGAACAGAAAATCAAAAGCTTCTTTGAAGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaactaattttttgctttactttgattttcttgccaccttgcctaccattttaagttgctaaatatatcatgtttgtctttag

Basic information

species Glycine max
transcript GLYMA20G28860.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G28860.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv05s0020g04080.t01 (Vitis vinifera), 5'ss of exon 4
TGCCCAGAAAAGTTGCCAAATTATGAACAGAAAATCAAAAGCTTCTTTGAAGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaactaattttttgctttactttgattttcttgccaccttgcctaccattttaagttgctaaatatatcatgtttgtctttag-
|||||||||||  |||||||||||||| |||| ||||| | ||| |||||||||||||||||||||||||||||||| ||||  ||||  || |||||||||| ||  | | ||   | |||    |  |||  || ||||  | ||||  |    | | |    ||| | | |  ||| |  | |  
TGCCCAGAAAAACTGCCAAATTATGAAGAGAAGATCAAGAACTTTTTTGAAGAGCATCTTCACACTGATGAGGAGATTCGCTACTGTGTGGCAGGAAGTGgtagga--tgagttgcagttttgtagtt-tttagttcccactctacctattaacccaggctttctaat-ttttac-tttatggtgaag
















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|7283499|gb|AW596106.1|AW596106
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|13477757|gb|BG507506.1|BG507506
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|298179497|gb|HO027968.1|HO027968
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|298196159|gb|HO044550.1|HO044550
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGACGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|193565451|gb|FK527244.1|FK527244
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATG
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATG
EST: gi|193608303|gb|FK555284.1|FK555284
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGT
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGT
EST: gi|298189869|gb|HO038272.1|HO038272
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|13252127|gb|BG363030.1|BG363030
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|193572267|gb|FK530012.1|FK530012
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATG
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATG
EST: gi|298184335|gb|HO029548.1|HO029548
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|298170432|gb|HO019056.1|HO019056
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|209706869|gb|BW683209.1|BW683209
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|19053712|gb|BM732379.1|BM732379
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|193566133|gb|FK524608.1|FK524608
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATG
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATG
EST: gi|298182107|gb|HO026282.1|HO026282
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|298184623|gb|HO029836.1|HO029836
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGAGGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|298189141|gb|HO037544.1|HO037544
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|209706331|gb|BW680691.1|BW680691
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATNTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|6719759|gb|AW307406.1|AW307406
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|213601717|gb|DB972425.1|DB972425
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATNTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|7233975|gb|AW569317.1|AW569317
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|254326218|gb|GR840810.1|GR840810
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCG
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCG
EST: gi|298181742|gb|HO025917.1|HO025917
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|21479899|gb|BQ576582.1|BQ576582
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|193415232|gb|FK380122.1|FK380122
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|208073336|gb|GD870711.1|GD870711
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|7925120|gb|AW831146.1|AW831146
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|208308684|gb|GE106312.1|GE106312
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|15813927|gb|BI786202.1|BI786202
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|10238192|gb|BE807080.1|BE807080
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|208031960|gb|GD829900.1|GD829900
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|193570260|gb|FK525331.1|FK525331
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATG
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATG
EST: gi|193701216|gb|FK638661.1|FK638661
EST:     GAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAAGTG                         GCTATTTTGATG
genomic: GAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAA-GTGgtatgaacta ... ttgtctttagGCTATTTTGATG
EST: gi|208168596|gb|GD968698.1|GD968698
EST:     AGAGCATCTTCACACTGATGAAGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|298175141|gb|HO014944.1|HO014944
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
EST: gi|8827270|gb|BE211000.1|BE211000
EST:     AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTG                         GCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA
genomic: AGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaacta ... ttgtctttagGCTATTTTGATGTTAGGGATCGCAATGAAGCTTGGATTCGTGTGTGGGTCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCCCAGAAAAGTTGCCAAATTATGAACAGAAAATCAAAAGCTTCTTTGAAGAGCATCTTCACACTGATGAGGAGATCCGCTTTTGTGCTGCTGGAAGTGgtatgaactaattttttgctttactttgattttcttgccaccttgcctaccattttaagttgctaaatatatcatgtttgtctttag

- - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG