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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGCAGGGTCGAGAGCCAGCTGAAACTAGTGATTAGGCCCATGTACTCAAGTCCTCCTATTCATGGTGCATCCATTGTGGCTGCCATTCTCAAGGACCGgtaatgagccaaacttctgctacacaaagaaggatttgttgctgactatcttattattctttccccactgcttttttttttctctgatgaatactagtct...

Basic information

species Glycine max
transcript GLYMA04G08560.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G08560.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os01g55540.2 (Oryza sativa), 5'ss of exon 9
CAAGCAGGGTCGAGAGCCAGCTGAAACTAGTGATTAGGCCCATGTACTCAAGTCCTCCTATTCATGGTGCATCCATTGTGGCTGCCATTCTCAAGGACCGgtaa---tga-gccaaacttctgctacacaaagaaggatttgttgctgactatcttattattctttccccactgcttttttttttctctga--tgaatactagtct-----------------------
|   |||||| || || || || || || || |||||||| ||||| ||||  |||||||||||||||||||| || |||||| |||| || |||||| |||||   ||| | || | |  | |||  |||  |  ||      |||   | |      |  | | ||     ||   ||          |  ||  | |||   |                       
CTGTCAGGGTTGAAAGTCAACTTAAGCTTGTAATTAGGCCTATGTATTCAAACCCTCCTATTCATGGTGCATCTATCGTGGCTACCATACTTAAGGACAGgtaacattgatgtcataataattctagtcaaccatagaaagtgagctatatgttgagaaaggcatgcctagaggcagattcagggaataaaagtgtgtgctaagttctttttgattatatttttactag
















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|192306581|gb|FG996243.1|FG996243
EST:     AGTCCTCCTATTCATGGTGCATCCATTGTGGCTGCCATTCTCAAGGACCG                         GGATTTGTTCAATGACTGGACTATTGAGTTGAAGGCAATGGCTGATCGCAT
genomic: AGTCCTCCTATTCATGGTGCATCCATTGTGGCTGCCATTCTCAAGGACCGgtaatgagcc ... tctctttcagGGATTTGTTCAATGACTGGACTATTGAGTTGAAGGCAATGGCTGATCGCAT
EST: gi|20812962|gb|BQ297440.1|BQ297440
EST:     AGTCCTCCTATTCATGGTGCATCCATTGTGGCTGCCATTCTCAAGGACCG                         GGATTTGTTCAATGACTGGACTATTGAGTTGAAGGCAATGGCTGATCGCAT
genomic: AGTCCTCCTATTCATGGTGCATCCATTGTGGCTGCCATTCTCAAGGACCGgtaatgagcc ... tctctttcagGGATTTGTTCAATGACTGGACTATTGAGTTGAAGGCAATGGCTGATCGCAT
EST: gi|9901743|gb|BE610711.1|BE610711
EST:     AGTCCTCCTATTCATGGTGCATCCATTGTGGCTGCCATTCTCAAGGACCG                         GGATTTGTTCAATGACTGGACTATTGAGTTGAAGGCAATGGCTGATCGCAT
genomic: AGTCCTCCTATTCATGGTGCATCCATTGTGGCTGCCATTCTCAAGGACCGgtaatgagcc ... tctctttcagGGATTTGTTCAATGACTGGACTATTGAGTTGAAGGCAATGGCTGATCGCAT
EST: gi|13481430|gb|BG510773.1|BG510773
EST:     GGTGCATCCATTGTGGCTGCCATTCTCAAGGACCG                         GGATTTGTTCAATGACTGGACTATTGAGTTGAAGGCAATGGCTGATCGCAT
genomic: GGTGCATCCATTGTGGCTGCCATTCTCAAGGACCGgtaatgagcc ... tctctttcagGGATTTGTTCAATGACTGGACTATTGAGTTGAAGGCAATGGCTGATCGCAT
EST: gi|192328739|gb|FK023197.1|FK023197
EST:     AGTCCTCCTATTCATGGTGCATCCATTGTGGCTGCCATTCTCAAGGACCG                         GGATTTGTTCAATGACTGGACTATTGAGTTGAAGGCAATGGCTGATCGCAT
genomic: AGTCCTCCTATTCATGGTGCATCCATTGTGGCTGCCATTCTCAAGGACCGgtaatgagcc ... tctctttcagGGATTTGTTCAATGACTGGACTATTGAGTTGAAGGCAATGGCTGATCGCAT
EST: gi|22932102|gb|BU549241.1|BU549241
EST:     AGTCCTCCTATTCATGGTGCATCCATTGTGGCTGCCATTCTCAAGGACCG                         GGATTTGTTCAATGACTGGACTATTGAGTTGAAGGCAATGGCTGATCGCAT
genomic: AGTCCTCCTATTCATGGTGCATCCATTGTGGCTGCCATTCTCAAGGACCGgtaatgagcc ... tctctttcagGGATTTGTTCAATGACTGGACTATTGAGTTGAAGGCAATGGCTGATCGCAT
EST: gi|192334120|gb|FK026277.1|FK026277
EST:     AGTCCTCCTATTCATGGTGCATCCATTGTGGCTGCCATTCTCAAGGACCG                         GGATTTGTTCAATGACTGGACTATTGAGTTGAAGGCAATGGCTGATCGCAT
genomic: AGTCCTCCTATTCATGGTGCATCCATTGTGGCTGCCATTCTCAAGGACCGgtaatgagcc ... tctctttcagGGATTTGTTCAATGACTGGACTATTGAGTTGAAGGCAATGGCTGATCGCAT
EST: gi|17153142|gb|BM143075.1|BM143075
EST:     AGTCCTCCTATTCATGGTGCATCCATTGTGGCTGCCATTCTCAAGGACCG                         GGATTTGTTCAATGACTGGACTATTGAGTTGAAGGCAATGGCTGATCGCAT
genomic: AGTCCTCCTATTCATGGTGCATCCATTGTGGCTGCCATTCTCAAGGACCGgtaatgagcc ... tctctttcagGGATTTGTTCAATGACTGGACTATTGAGTTGAAGGCAATGGCTGATCGCAT
EST: gi|254322787|gb|GR839808.1|GR839808
EST:     AGTCCTCCTATTCATGGTGCATCCATTGTGGCTGCCATTCTCAAGGACCG                         GGATTTGTTCAATGACTGGACTATTGAGTTGAAGGCAATGGCTGATCGCAT
genomic: AGTCCTCCTATTCATGGTGCATCCATTGTGGCTGCCATTCTCAAGGACCGgtaatgagcc ... tctctttcagGGATTTGTTCAATGACTGGACTATTGAGTTGAAGGCAATGGCTGATCGCAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAAGCAGGGTCGAGAGCCAGCTGAAACTAGTGATTAGGCCCATGTACTCAAGTCCTCCTATTCATGGTGCATCCATTGTGGCTGCCATTCTCAAGGACCGgtaatgagccaaacttctgctacacaaagaaggatttgttgctgactatcttattattctttccccactgcttttttttttctctgatgaatactagtct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttcccc