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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCTGGGGTTACTTGTAATTTGAGTATGAATTGGTATTACTCTTATAGTACATGGCTTGTGCCTGTTAAGATCTCTGACAGAGGTAGAGCAGAAGTTCAGgtatgaaatttttcctttattttgtttgtgtatataaagagagaagatttaattagaatgcaatttcaaagttattttacactgtcctccaattaaagat...

Basic information

species Glycine max
transcript GLYMA14G05590.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G05590.1 (Glycine max), 5'ss of exon 1
lower sequence: AT1G04970.1 (Arabidopsis thaliana), 5'ss of exon 1
TTCTGGGGTTACTTGTAATTTGAGTATGAATTGGTATTACTCTTATAGTACATGGCTTGTGCCTGTTAAGATCTCTGACAGAGGTAGAGCAGAAGTTCAGgtatgaaatttttcctttattttgtttgtgtatataaagagagaagatttaattagaatgcaatttcaaagttattttacactgtcctccaattaaagat-
||| |||   |||||||||||||||||||||||| |||| ||||| ||||| ||||||   ||| || | || |||||    ||||  |||   |||||||||   |   |    |||| |   | |  || |  |       ||  ||       |||| ||   |||  || |||    |    | | ||||   | | 
TTCAGGGACGACTTGTAATTTGAGTATGAATTGGCATTATTCTTACAGTACTTGGCTTCCTCCTATTGAAATATCTGATCAGGGTATTGCATCTGTTCAGgtaattatgatcaattttactaattcttagttttgatcatctcaatcttgtgaatcaatggaaagacaagatt-tttcttgcgaatcacaaatttctgttc

upper sequence: GLYMA14G05590.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv12s0059g01680.t01 (Vitis vinifera), 5'ss of exon 1
TTCTGGGGTTACTTGTAATTTGAGTATGAATTGGTATTACTCTTATAGTACATGGCTTGTGCCTGTTAAGATCTCTGACAGAGGTAGAGCAGAAGTTCAGgtatgaaatttttcctttattttgtttgtgtatataaagagagaagatttaattagaatgcaatttcaaagttattttacactgtcctccaattaaagat-----
 || ||    |||||||||||||| ||||||||| |||| ||||||| ||| ||| | ||||| ||  | || || || || || |  ||  |||||||||||| |      |   | ||||||    ||    | ||    |   ||||  ||    |     ||     ||  ||     |||  |    ||    ||     
CTCAGGCACCACTTGTAATTTGAGCATGAATTGGCATTATTCTTATAATACTTGGTTCGTGCCCGTCGAAATTTCGGATAGTGGGACCGCCCAAGTTCAGgtataag-----tgagtaattttgaagttgggattgaattttgtcaatttcgttgttgttttgctttgtgatttgttgggtttgtttttgttttgggcatacgca
















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|213599844|gb|DB966402.1|DB966402
EST:     CATGGCTTGTGCCTGTTAAGATCTCTGACAGAGGTAGAGCAGAAGTTCAG                         GTTGAAGGCATGGAAGTAGGACTTACATTGGGTTTGGAGAACCAGGAAGGG
genomic: CATGGCTTGTGCCTGTTAAGATCTCTGACAGAGGTAGAGCAGAAGTTCAGgtatgaaatt ... tgctggaaagGTTGAAGGCATGGAAGTAGGACTTACATTGGGTTTGGAGAACCAGGAAGGG
EST: gi|9987464|gb|BE661572.1|BE661572
EST:     CATGGCTTGTGCCTGTTAAGATCTCTGACAGAGGTAGAGCAGAAGTTCAG                         GTTGAAGGCATGGAAGTAGGACTTACATTGGGTTTGGAGAACCAGGAAGGG
genomic: CATGGCTTGTGCCTGTTAAGATCTCTGACAGAGGTAGAGCAGAAGTTCAGgtatgaaatt ... tgctggaaagGTTGAAGGCATGGAAGTAGGACTTACATTGGGTTTGGAGAACCAGGAAGGG
EST: gi|21285940|gb|BQ473811.1|BQ473811
EST:     CATGGCTTGTGCCTGTTAAGATCTCTGACAGAGGTAGAGCAGAAGTTCAG                         GTTGAAGGCATGGAAGTAAGACTTACATTGGGTTTGGAGA
genomic: CATGGCTTGTGCCTGTTAAGATCTCTGACAGAGGTAGAGCAGAAGTTCAGgtatgaaatt ... tgctggaaagGTTGAAGGCATGGAAGTAGGACTTACATTGGGTTTGGAGA
EST: gi|192295294|gb|FG985948.1|FG985948
EST:     CATGGCTTGTGCCTGTTAAGATCTCTGACAGAGGTAGAGCAGAAGTTCAG                         GTTGAAGGCATGGAAGTAGGACTTACATTGGGTTTGGAGAACCAGGAAGGG
genomic: CATGGCTTGTGCCTGTTAAGATCTCTGACAGAGGTAGAGCAGAAGTTCAGgtatgaaatt ... tgctggaaagGTTGAAGGCATGGAAGTAGGACTTACATTGGGTTTGGAGAACCAGGAAGGG
EST: gi|151409546|gb|EV279354.1|EV279354
EST:     CATGGCTTGTGCCTGTTAAGATCTCTGACAGAGGTAGAGCAGAAGTTCAG                         GTTGAAGGCATGGAAGTAGGACTTACATTGGGTTTGGAGAACCAGGAAGGG
genomic: CATGGCTTGTGCCTGTTAAGATCTCTGACAGAGGTAGAGCAGAAGTTCAGgtatgaaatt ... tgctggaaagGTTGAAGGCATGGAAGTAGGACTTACATTGGGTTTGGAGAACCAGGAAGGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTCTGGGGTTACTTGTAATTTGAGTATGAATTGGTATTACTCTTATAGTACATGGCTTGTGCCTGTTAAGATCTCTGACAGAGGTAGAGCAGAAGTTCAGgtatgaaatttttcctttattttgtttgtgtatataaagagagaagatttaattagaatgcaatttcaaagttattttacactgtcctccaattaaagat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT