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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGGGGGACTATTACCGGTACCTCGCGGAGTTCAAGTCCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgtatttggacctcttgcatctgttgtggttttaattttaagcctggtgattctgattcatggtatctgtgttggagtgtggactaactatat...

Basic information

species Glycine max
transcript GLYMA08G12220.5
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G12220.5 (Glycine max), 5'ss of exon 3
lower sequence: Vv19s0014g01420.t01 (Vitis vinifera), 5'ss of exon 3
GAAGGGGGACTATTACCGGTACCTCGCGGAGTTCAAGTCCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgtatttggacctcttgcatctgttgtggttttaattttaagcctggtgattctgattcatggtatctgtgttggagtgtggacta-actatat-
||| ||||| ||||| |||||||| |||||||||||| ||||  ||||||| |||||||| |||||||| ||  | ||||| || ||||| |   ||  ||||   |  |||     ||  || | ||  | | ||   ||   |||    ||         ||||  | ||| |  |  |  |||    
GAAAGGGGATTATTATCGGTACCTGGCGGAGTTCAAGACCGGCAATGAGAGGAAAGAGGCGGCTGATCAGTCTCTTAAGGCATACCAGgtatatatgcttttgtttcatttgagctcgtgatgttcttt-tatgaattttgtccatttctgtttgcttcgcatgtgg-gaagtatctagcatgctaagga

upper sequence: GLYMA08G12220.5 (Glycine max), 5'ss of exon 3
lower sequence: PP1S201_25V6.1 (Physcomitrella patens), 5'ss of exon 3
GAAGGGGGACTATTACCGGTACCTCGCGGAGTTCAAGTCCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgtatttggacctcttgcatctgttgtggttttaattttaagcctggtgattctgattcatggtatctgtgttggagtgtggactaa---ctatat----------------------------------------------------------------------------------------
|||||| ||||| ||||||||||| |||||||||||  | || | |||||||||||| |||||||| || ||  ||||||| || ||||| ||  |   |  ||     | |    |||  ||  |   ||  | ||| |||    |  |       |  | ||      | ||| | |||    || |||                                                                                        
GAAGGGAGACTACTACCGGTACCTGGCGGAGTTCAAAACTGGGGCTGAGAGAAAAGAAGCTGCTGACCAATCTTTGAAGGCCTACCAGgtgtgtctacgtgggggtgattgggtgttgtgctgagtaatatagtgagcttgggtggttggcactgcagcttgtggtgataactgttgtctagtttctgtatctggcggtggtggcgcagtgttgtccaattaagtgggctgcgtggcatgagtagtaacgtgacggaggtgatgtgaatacgtgtgcag

upper sequence: GLYMA08G12220.5 (Glycine max), 5'ss of exon 3
lower sequence: PP1S46_127V6.1 (Physcomitrella patens), 5'ss of exon 3
GAAGGGGGACTATTACCGGTACCTCGCGGAGTTCAAGTCCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgtatttggacctc---ttgcatctgt--tgtggttttaatt--ttaagcctggtgattctgattcatggtatctgtgttggagtgtggactaactatat-----------------------------------------------------------------------------------------
|||||| || || || |||||||| |||||||||||| ||||  ||||||| |||||||| ||||| || ||  ||||||| || ||||| || |   |  ||   |||   ||||     |  |      || | |  | |   ||||  || |||  | ||  | |   |   | |      | | || ||                                                                                           
GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAGGAAAGAGGCCGCTGACCAATCTTTGAAGGCATACCAGgtatgttcaaagatgagtctcagattgcgctgataatacaaccttcagtggtcatttctggaaatgctg--tgataattttcatagagtaactgacagtgacaatcgtgtttactacggcccagtgggtcattcgtcttgagtggttgtcttggcctggtaatgacatacagaaagtcgtatgtgcacgtgtgcag

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|208068110|gb|GD861872.1|GD861872
EST:     GAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: GAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|193313226|gb|FK279181.1|FK279181
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|298163055|gb|HO011788.1|HO011788
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAG
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAG
EST: gi|10846741|gb|BF069606.1|BF069606
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|23058349|gb|BU578308.1|BU578308
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGA
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGA
EST: gi|208255162|gb|GE050813.1|GE050813
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|298194812|gb|HO043284.1|HO043284
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGA
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGA
EST: gi|209698244|gb|BW667547.1|BW667547
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|207712934|gb|GD692886.1|GD692886
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|11273769|gb|BF324164.1|BF324164
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAATGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACC-CCCA
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCA
EST: gi|193514293|gb|FK470609.1|FK470609
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|298195876|gb|HO044267.1|HO044267
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGC
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGC
EST: gi|298177315|gb|HO027096.1|HO027096
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGC
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGC
EST: gi|298165318|gb|HO011367.1|HO011367
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTTCTCTACTGCAG
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAG
EST: gi|21677259|gb|BQ629610.1|BQ629610
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|207796679|gb|GD768405.1|GD768405
EST:     GAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: GAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|208186969|gb|GD985069.1|GD985069
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|193475923|gb|FK441234.1|FK441234
EST:     CTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|207720046|gb|GD702545.1|GD702545
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|207730991|gb|GD706506.1|GD706506
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|193312196|gb|FK275672.1|FK275672
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCA
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCA
EST: gi|15201076|gb|BI424680.1|BI424680
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|37994791|gb|CF806380.1|CF806380
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|10237538|gb|BE806426.1|BE806426
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|193673030|gb|FK620348.1|FK620348
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|207797068|gb|GD770348.1|GD770348
EST:     GAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: GAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|151393532|gb|EV263407.1|EV263407
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|31560979|gb|CD486817.1|CD486817
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCAACCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|208228251|gb|GE021599.1|GE021599
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|208079854|gb|GD874110.1|GD874110
EST:     GTGATGAGTAGTAAAAGTAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: GTGATGAG-AG-AAAAG-AGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|298174010|gb|HO017346.1|HO017346
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAG
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAG
EST: gi|192305213|gb|FG993965.1|FG993965
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCGTTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|192297914|gb|FG988370.1|FG988370
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|192307132|gb|FK002294.1|FK002294
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAT                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|207806808|gb|GD778389.1|GD778389
EST:     ATGAGAGAAAAGAGGCTTGTCTTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: ATGAGAGAAAAGAGGC-TG-C-TGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
EST: gi|208117202|gb|GD916338.1|GD916338
EST:     CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG                         TCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT
genomic: CCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgt ... aatattgcagTCGGCTTCCACTACTGCAGAGGCTGAGTTACCACCCACACATCCCATCCGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGGGGGACTATTACCGGTACCTCGCGGAGTTCAAGTCCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAGgtctgcttgtatttggacctcttgcatctgttgtggttttaattttaagcctggtgattctgattcatggtatctgtgttggagtgtggactaactatat

- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT