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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTGATATGCTGCGCAGACAGTCACTTCGGCCAGACTACATCAAGATGTTTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttctaaatcatattccttttgttaatgaagaattactgattggatttcttgtttatgatatgtaatgccccacgtttctgtatttttgtacattg...

Basic information

species Glycine max
transcript GLYMA15G18760.3
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G18760.3 (Glycine max), 5'ss of exon 4
lower sequence: AT1G54270.2 (Arabidopsis thaliana), 5'ss of exon 4
ATTTGATATGCTGCGCAGACAGTCACTTCGGCCAGACTACATCAAGATGTTTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttctaaatcatattccttttgttaatgaagaattactgattggatttcttgtttatgatatgtaatgccccacgtttctgtatttttgtacattg
 ||||| |||||  | ||||| || || || || |||| |||||||||||||||  | ||||| |||||||||||||| ||||||||||| || |||||||||  ||    ||| | |||    | | |||  |   |   || ||  || |||  | |    |  ||  ||       ||   ||   |||| |     
TTTTGACATGCTTAGAAGACAATCTCTCCGCCCTGACTGCATCAAGATGTTTGTCCTTGATGAAGCTGATGAAATGCTCTCCCGTGGTTTCAAGGATCAGgtttgtt----atcttcttcaaagtttgaatctaccctctgtggtt--atctctgatattgacttggttttgtgttgttttctggtgaatttgcag----

upper sequence: GLYMA15G18760.3 (Glycine max), 5'ss of exon 4
lower sequence: AT3G13920.2 (Arabidopsis thaliana), 5'ss of exon 4
ATTTGATATGCTGCGCAGACAGTCACTTCGGCCAGACTACATCAAGATGTTTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttctaaatcatattccttttgttaatgaagaattactgattggatttcttgtttatgatatgtaatgccccacgtttctgtatttttgtacattg
 ||||| ||| ||   || ||||| |||||  | ||| ||||||||||||||||  | ||||| |||||||||||||| ||||||||||| || || |||||    |  ||||  |  ||  | | | |||            |||    || | |||||  |  || |||  | |  |||||||  |||||  |     
CTTTGACATGTTGAAGAGGCAGTCTCTTCGTGCTGACAACATCAAGATGTTTGTTCTCGATGAAGCTGATGAAATGCTCTCCCGTGGTTTCAAGGACCAGgta---tgcaaatatttctcagtgtttcaat---------tccattctcgttatagttta--acttg-aatctcactggtttctgggttttttcag----

upper sequence: GLYMA15G18760.3 (Glycine max), 5'ss of exon 4
lower sequence: AT1G72730.1 (Arabidopsis thaliana), 5'ss of exon 4
ATTTGATATGCTGCGCAGACAGTCACTTCGGCCAGACTACATCAAGATGTTTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttctaaatcatattccttttgttaatgaagaattactgattggatttcttgtttatgatatgtaatgccccacgtttctgtatttttgtacattg-----
 |||||  || | |||||||| || || ||  | ||    ||||| ||||||||  | ||||| |||||||||||||| || |||||||| || |||||||||       |||| | ||   | |   | | |    ||  |       |||||   | || | ||   | | |    |||  | || |||  |   |       
CTTTGACTTGTTACGCAGACAATCCCTCCGTGCTGATGCAATCAAAATGTTTGTTCTTGATGAAGCTGATGAAATGCTCTCTCGTGGTTTCAAGGATCAGgttt------aatcttgtttaatctcccattcacattttctt-------tttctctctgataaaat--caagtcatttgttcttataatttgatttctctgtcag

upper sequence: GLYMA15G18760.3 (Glycine max), 5'ss of exon 4
lower sequence: Vv11s0016g01920.t01 (Vitis vinifera), 5'ss of exon 3
ATTTGATATGCTGCGCAGACAGTCACTTCGGCCAGACTACATCAAGATGTTTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttctaaatcatattccttttgttaatgaagaattactgattggatttcttgtttatgatatgtaatgccccacgtttctgtatttttgtacattg---
|||||| |||||||| |||||||| ||||| || || ||||| || |||||||| |||||||| || ||||||||||| || || ||||| || ||||||||  ||  |||| | ||   |  || ||| ||     | |||  |  |      | |  || |  || |||   |    |  | ||||   | ||   ||   
ATTTGACATGCTGCGAAGACAGTCCCTTCGTCCTGATTACATTAAAATGTTTGTGTTGGATGAAGCAGATGAAATGCTCTCTCGAGGTTTCAAGGATCAGgtcattcttaaaccctaaatccattcttattgttt--tcacttttgtggcaaaatttccatcaactgcaatattcttt-tgacagtatgagtatatgatgcat

upper sequence: GLYMA15G18760.3 (Glycine max), 5'ss of exon 4
lower sequence: EFJ16567 (Selaginella moellendorffii), 5'ss of exon 3
ATTTGATATGCTGCGCAGACAGTCACTTCGGCCAGACTACATCAAGATGTTTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttctaaatcatattccttttgttaatgaagaattactgattggatttcttgtttatgatatgtaatgccccacgtttctgtatttttgtacattg
 |  ||||||||  |  | |   | || ||||| ||||||||||||||||||||  |||| ||||| || || ||||| ||||| ||||| || || |||||    |  ||   |   |  | |   |||  |       |||  ||  |  ||||| | |   |                                   
CTACGATATGCTCAGGCGTCGCGCGCTGCGGCCGGACTACATCAAGATGTTTGTCCTGGACGAGGCGGACGAGATGCTGTCCCGCGGTTTCAAGGACCAGgtaaggtggaaggaaagctggtctatataacca-----ccctgcctg--tgccttgtgtgtcgcag----------------------------------

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|193403438|gb|FK368614.1|FK368614
EST:     TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAG                         ATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
genomic: TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttcta ... tttttatcagATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
EST: gi|298172553|gb|HO019593.1|HO019593
EST:     GTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAG                         ATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
genomic: GTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttcta ... tttttatcagATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
EST: gi|193425013|gb|FK389336.1|FK389336
EST:     TGTATTGGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAG                         ATCTATGATATATTCCAGTTGACTTCCATCTAAGATTCAAGTGGGAGTTTT
genomic: TGTATT-GGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttcta ... tttttatcagATCTATGATATATTCCAGTTG-CTTCCATCTAAGATTCAAGTGGGAGTTTT
EST: gi|193524424|gb|FK481861.1|FK481861
EST:     TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAG                         ATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
genomic: TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttcta ... tttttatcagATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
EST: gi|22522261|gb|BU081072.1|BU081072
EST:     TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAG                         ATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
genomic: TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttcta ... tttttatcagATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
EST: gi|193648891|gb|FK599696.1|FK599696
EST:     TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAG                         ATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
genomic: TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttcta ... tttttatcagATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
EST: gi|18692928|gb|BM521776.1|BM521776
EST:     TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTANAGATCAG                         ATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
genomic: TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttcta ... tttttatcagATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
EST: gi|13791066|gb|BG653657.1|BG653657
EST:     TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAG                         ATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
genomic: TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttcta ... tttttatcagATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
EST: gi|151393738|gb|EV263613.1|EV263613
EST:     TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAG                         ATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
genomic: TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttcta ... tttttatcagATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
EST: gi|208026821|gb|GD824435.1|GD824435
EST:     AGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAG                         ATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
genomic: AGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttcta ... tttttatcagATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
EST: gi|298163902|gb|HO013547.1|HO013547
EST:     GGTTTTAAAGATCAG                         ATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
genomic: GGTTTTAAAGATCAGgttctttcta ... tttttatcagATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
EST: gi|208285359|gb|GE082981.1|GE082981
EST:     TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAG                         ATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
genomic: TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttcta ... tttttatcagATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
EST: gi|193729377|gb|FK667277.1|FK667277
EST:     TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAG                         ATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
genomic: TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttcta ... tttttatcagATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
EST: gi|13563315|gb|BG551535.1|BG551535
EST:     GGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAG                         ATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
genomic: GGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttcta ... tttttatcagATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
EST: gi|298193112|gb|HO033546.1|HO033546
EST:     TTGTATTGGATGTGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAG                         ATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
genomic: TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttcta ... tttttatcagATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
EST: gi|207762091|gb|GD734226.1|GD734226
EST:     TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAG                         ATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGCGGGAGTTTTC
genomic: TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttcta ... tttttatcagATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
EST: gi|208052502|gb|GD851337.1|GD851337
EST:     TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAG                         ATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
genomic: TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttcta ... tttttatcagATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
EST: gi|207780817|gb|GD751310.1|GD751310
EST:     TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAG                         ATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
genomic: TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttcta ... tttttatcagATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGAGTTTTC
EST: gi|193634600|gb|FK583871.1|FK583871
EST:     TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAG                         ATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGGTAGTTTT
genomic: TTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttcta ... tttttatcagATCTATGATATATTCCAGTTGCTTCCATCTAAGATTCAAGTGGG-AGTTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTTGATATGCTGCGCAGACAGTCACTTCGGCCAGACTACATCAAGATGTTTGTATTGGATGAGGCTGATGAAATGCTTTCCCGTGGTTTTAAAGATCAGgttctttctaaatcatattccttttgttaatgaagaattactgattggatttcttgtttatgatatgtaatgccccacgtttctgtatttttgtacattg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gccccac