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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGAgtaagtctaatctcttctctttctgtcttcatcactatctcattcactcgtcacacagatactagccacccagatatgttcactgatatctttcactctg...

Basic information

species Glycine max
transcript GLYMA10G35560.2
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G35560.2 (Glycine max), 5'ss of exon 11
lower sequence: AT1G48850.2 (Arabidopsis thaliana), 5'ss of exon 11
GGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGAgtaagtctaatctcttctctttctg--tcttcatcactatctca----ttcactcgtca-cacagatactagccacccagatatgttcactgatatctttcactctg
|| || || || ||||| ||||| || || |||||| |||| |||||||||||||||||||||||||||||| |    |   ||| | | |  |||| || |  ||  ||    |   || |  | ||  |||  |  |   |||   |||  ||  |               
GGAGGGATCTCAAATGGTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGAgtaagtttgtgataaactcatgcaggatctttataaacataacaaatgtcagcttgagatcattgatgttttctttcca---atgcgcagag---------------

upper sequence: GLYMA10G35560.2 (Glycine max), 5'ss of exon 11
lower sequence: AT1G48850.3 (Arabidopsis thaliana), 5'ss of exon 11
GGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGAgtaagtctaatctcttctctttctg--tcttcatcactatctca----ttcactcgtca-cacagatactagccacccagatatgttcactgatatctttcactctg
|| || || || ||||| ||||| || || |||||| |||| |||||||||||||||||||||||||||||| |    |   ||| | | |  |||| || |  ||  ||    |   || |  | ||  |||  |  |   |||   |||  ||  |  |            
GGAGGGATCTCAAATGGTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGAGTAAgtttgtgataaactcatgcaggatctttataaacataacaaatgtcagcttgagatcattgatgttttctttcca---atgcgcagaggaag-----------

upper sequence: GLYMA10G35560.2 (Glycine max), 5'ss of exon 11
lower sequence: AT1G48850.1 (Arabidopsis thaliana), 5'ss of exon 11
GGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGAgtaagtctaatctcttctctttctg--tcttcatcactatctca----ttcactcgtca-cacagatactagccacccagatatgttcactgatatctttcactctg
|| || || || ||||| ||||| || || |||||| |||| |||||||||||||||||||||||||||||| |    |   ||| | | |  |||| || |  ||  ||    |   || |  | ||  |||  |  |   |||   |||  ||                  
GGAGGGATCTCAAATGGTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGAgtaagtttgtgataaactcatgcaggatctttataaacataacaaatgtcagcttgagatcattgatgttttctttcca---atgcgcag-----------------

upper sequence: GLYMA10G35560.2 (Glycine max), 5'ss of exon 11
lower sequence: Vv13s0019g04190.t01 (Vitis vinifera), 5'ss of exon 11
GGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGAgtaagtctaatctct-tctctttctgtcttcatcactatctcattcactcgtcacacagatactagccacccagatatgttcactgatatctttcactctg
|| ||||| || || ||||||||||| || || ||||||| ||||||||||||||| ||||||||||||||     ||||| ||||| ||| || |   ||  |   ||  |||  |       || | ||  || |    | || |   | ||     |||  |  
GGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCAACATCTACAATTGGAgtaagcaagctctctctctctctctctcatgcacaagacaacaaacacatgcattcatgagaataatcagcatcctttggttg-taatggagctcagccaa

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|16276418|gb|BI941848.1|BI941848
EST:     GGGAAATCATTAATATGAGAATAGCTNTCAAGCCAACATCAACAATTGGA                         AAGAAGCANAATACTGTGACTCGAGATAAAAAAGAAACAGAGTTTATAGCC
genomic: GGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGAgtaagtctaa ... acttgtgcagAAGAAGCAAAATACTGTGACTCGAGATAAAAAAGAAACAGAGTTTATAGCC
EST: gi|16276792|gb|BI942046.1|BI942046
EST:     GGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGA                         AAGAAGCAAAATACTGTGACTCGAGATAAAAAAGAAACAGAGTTTATTAGC
genomic: GGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGAgtaagtctaa ... acttgtgcagAAGAAGCAAAATACTGTGACTCGAGATAAAAAAGAAACAGAGTTTAT-AGC
EST: gi|193486868|gb|FK450449.1|FK450449
EST:     GGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGA                         AAGAAGCAAAATACTGTGACTCGAGATAAAAAAGAAACAGAGTT
genomic: GGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGAgtaagtctaa ... acttgtgcagAAGAAGCAAAATACTGTGACTCGAGATAAAAAAGAAACAGAGTT
EST: gi|207808737|gb|GD776748.1|GD776748
EST:     GGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGA                         AAGAAGCAAAATACTGTGACTCGAGATAAAAAAGAAACAGAGTTTATAGCC
genomic: GGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGAgtaagtctaa ... acttgtgcagAAGAAGCAAAATACTGTGACTCGAGATAAAAAAGAAACAGAGTTTATAGCC
EST: gi|10843361|gb|BF066663.1|BF066663
EST:     GGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGA                         AAGAAGCAAAAGACTGTGACTCGAGATAAAAAAGAAACAGAGTTTATAGCC
genomic: GGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGAgtaagtctaa ... acttgtgcagAAGAAGCAAAATACTGTGACTCGAGATAAAAAAGAAACAGAGTTTATAGCC
EST: gi|208247306|gb|GE048950.1|GE048950
EST:     GGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGA                         AAGAAGCAAAATACTGTGACTCGAGATAAAAAAGAAACAGAGTTTATAGCC
genomic: GGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGAgtaagtctaa ... acttgtgcagAAGAAGCAAAATACTGTGACTCGAGATAAAAAAGAAACAGAGTTTATAGCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGAgtaagtctaatctcttctctttctgtcttcatcactatctcattcactcgtcacacagatactagccacccagatatgttcactgatatctttcactctg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaccca