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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCACATTGCCTTTTGCATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCACgtgagtgtccttctaattttgcatttactggatatattttgccaactgatattcttttgtaactagtcttttactgatttgatcttctggaggcaaggaa...

Basic information

species Glycine max
transcript GLYMA06G45160.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G45160.1 (Glycine max), 5'ss of exon 10
lower sequence: PP1S50_114V6.1 (Physcomitrella patens), 5'ss of exon 11
TTGCACATTGCCTTTTGCATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCACgtgagt--------gtccttctaattttgcatttactggatatattttgccaactg---------atattcttttgtaactagtcttttactgatttgatctt--ctggaggcaaggaa-------------------
 | || ||||  ||       || ||||||||||||||||||||| |||| || |||||||||||  |||||||         ||| | |||       ||   |  || | | |  |||  ||         ||||| || | | |  ||         |  | ||| ||  ||  ||   | ||                    
CTCCATATTGGTTTCGTTGGATTGGCTGCAGTTGCTCCACCAATTTTCTTTAAGGGAAAATCTCTTGCgtgagtttccgtggatccgtttaaaaagattttctttttatttgtatgaccaggtggaattgtaaatatttttctttgagaaggtcaggttagcgtagatttttactcaagtgcatgagttgggctttatgaatacag
















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|162286177|gb|FC456625.1|FC456625
EST:     ATTTTAGCTGCAGTTACTCCACCAATTATCTTCAAAGGAAAATCTCTCAC                         AGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
genomic: ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCACgtgagtgtcc ... ttgtggacagAGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
EST: gi|31474417|gb|CD416445.1|CD416445
EST:     ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCAC                         AGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
genomic: ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCACgtgagtgtcc ... ttgtggacagAGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
EST: gi|209724206|gb|BW658112.1|BW658112
EST:     ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCAC                         AGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
genomic: ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCACgtgagtgtcc ... ttgtggacagAGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
EST: gi|22928614|gb|BU545753.1|BU545753
EST:     ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCAC                         AGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
genomic: ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCACgtgagtgtcc ... ttgtggacagAGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
EST: gi|9899156|gb|BE608183.1|BE608183
EST:     ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCAC                         AGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
genomic: ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCACgtgagtgtcc ... ttgtggacagAGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
EST: gi|193318264|gb|FK285828.1|FK285828
EST:     ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCAC                         AGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
genomic: ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCACgtgagtgtcc ... ttgtggacagAGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
EST: gi|192320764|gb|FK013854.1|FK013854
EST:     ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATTTCTCAC                         AGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
genomic: ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCACgtgagtgtcc ... ttgtggacagAGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
EST: gi|209700002|gb|BW661218.1|BW661218
EST:     ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCAC                         AGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
genomic: ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCACgtgagtgtcc ... ttgtggacagAGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
EST: gi|254347258|gb|GR853507.1|GR853507
EST:     GCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCAC                         AGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
genomic: GCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCACgtgagtgtcc ... ttgtggacagAGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
EST: gi|21887940|gb|BQ741153.1|BQ741153
EST:     ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCAC                         AGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
genomic: ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCACgtgagtgtcc ... ttgtggacagAGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
EST: gi|209723674|gb|BW662569.1|BW662569
EST:     ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCAC                         AGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
genomic: ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCACgtgagtgtcc ... ttgtggacagAGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
EST: gi|15284739|gb|BI468630.1|BI468630
EST:     ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCAC                         AGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
genomic: ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCACgtgagtgtcc ... ttgtggacagAGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
EST: gi|31459116|gb|CD401144.1|CD401144
EST:     ATTTTAGCTGCAGTTGCTCCACCAATNATCTTCAAAGGAAAATCTCTCAC                         AGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG
genomic: ATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCACgtgagtgtcc ... ttgtggacagAGGCATTTTGGCTGCGATTGATGTGTTGGGAGACAATGCATTGGTTGGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGCACATTGCCTTTTGCATTTTAGCTGCAGTTGCTCCACCAATTATCTTCAAAGGAAAATCTCTCACgtgagtgtccttctaattttgcatttactggatatattttgccaactgatattcttttgtaactagtcttttactgatttgatcttctggaggcaaggaa

- - - - - - - - - - -  AGCTGC
- - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA