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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTGCATGATCCTGCTAAAGATACAGGTTTTGTCGGCAGTGCATTGACAAGTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaaaggatatttaatatctattctgttttggtcagtatatgtacttcaaccaaggtgtatgtatatatcaatgatacttatagactaagcttacttttgcag

Basic information

species Glycine max
transcript GLYMA18G00590.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G00590.1 (Glycine max), 5'ss of exon 5
lower sequence: AT4G14040.1 (Arabidopsis thaliana), 5'ss of exon 4
TTTGCATGATCCTGCTAAAGATACAGGTTTTGTCGGCAGTGCATTGACAAGTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaaaggatatttaatatctattctgttttggtcagtatatgtacttcaaccaaggtgtatgtatatatcaatgatacttatagactaagcttacttttgcag
 |||||||||||| ||||||||||||| | ||| || ||||| ||| | ||||| |||||| | ||||| |||| |   |||||  | |||||||||||||     |||  | |  ||  | |||| || | |||||     | |     ||   |  ||  |||   | || |    || |  || |||                   
CTTGCATGATCCTTCTAAAGATACAGGGTATGTTGGGAGTGCTTTGTCTAGTAATATGATAAGGTTTTTCAAGAACAGTGATGACACGTGGAGCCATGAGg-----caagtgaagtttctaaatct-ttttcttttgtcttatctcaaatctatgattaacttgtg-atttaaactggtgttgttt-tag-------------------

upper sequence: GLYMA18G00590.1 (Glycine max), 5'ss of exon 5
lower sequence: AT4G14030.1 (Arabidopsis thaliana), 5'ss of exon 5
TTTGCATGATCCTGCTAAAGATACAGGTTTTGTCGGCAGTGCATTGACAAGTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaaaggatatttaatatctattctgttttggtc-agtatatgtacttcaaccaaggtgtatgtatatatcaatgatacttatagactaagcttacttttgcag
 |||||||||||  ||||||||||||| ||||| || ||||| ||| | ||||| |||||| ||||||| |||| |   |||||| |||||||||||||||||  |  |     |  || || |  |||   | ||| |   ||   | || ||| |     |  ||   |   | |||| | |  | |    ||               
CTTGCATGATCCATCTAAAGATACAGGGTTTGTTGGGAGTGCCTTGTCGAGTAATATGATAAGATTTTTCAAGAACAGTGATGAAACATGGAGCCATGAGgtaagtgtagtttctgattcattttcattacttcttgttttggttcttataattctat----gactaaccaaccagcaataacaact-tgttttag--------------

upper sequence: GLYMA18G00590.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv05s0029g00240.t01 (Vitis vinifera), 5'ss of exon 5
TTTGCATGATCCTGCTAAAGATACAGGTTTTGTCGGCAGTGCATTGACAAGTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaaaggatatttaatatctattc---tgttttggtc------------agtatatgtacttcaaccaaggtgtatgtatatatcaatgatacttatagactaagcttacttttgcag
  ||||||||||| ||||||||||||| ||||| ||  |||| || ||||| |||||| | |||||||| ||||||| |||||  ||||||||||| |||||||    | |  || | |    || ||||   |||||    |            | | |||     || |  ||||  |    ||  |  |   ||| | |    ||||  |||||| || ||
CCTGCATGATCCTTCTAAAGATACAGGGTTTGTAGGTTGTGCCTTAACAAGCAACATGGTGCGATTTTTCAAGACCCCAGATGGGTCATGGAGCCACGAGgtatgcggataatatgtgtttcttcaattcctttgtttgaaaccttgcattttgaattgtattagtctctattaaggcatgacaatccacaatatataatcactccctaa-tttacttatgaag

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|192321462|gb|FK011748.1|FK011748
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|308098167|gb|HO761338.1|HO761338
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|6454871|gb|AW185620.1|AW185620
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|208059645|gb|GD860349.1|GD860349
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|10847443|gb|BF070130.1|BF070130
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGGAAAGTGCAAAACTGGATTCTTCCTGA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATT-GAAAGTGCAAAACTGGATTCTTCCTGA
EST: gi|208061837|gb|GD856289.1|GD856289
EST:     GTAACATGATACGATTTTTTAAGACCTAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|254347237|gb|GR853486.1|GR853486
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|254328939|gb|GR833311.1|GR833311
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|209724301|gb|BW662914.1|BW662914
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|254318556|gb|GR832724.1|GR832724
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|192321461|gb|FK011747.1|FK011747
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|308098505|gb|HO760246.1|HO760246
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|208182658|gb|GD980484.1|GD980484
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|254320364|gb|GR826381.1|GR826381
EST:     TGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: TGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|254322236|gb|GR837650.1|GR837650
EST:     GTAACATGATACGATTTTTT-AGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|207810533|gb|GD781642.1|GD781642
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|19269932|gb|BM886188.1|BM886188
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTGCATGATCCTGCTAAAGATACAGGTTTTGTCGGCAGTGCATTGACAAGTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaaaggatatttaatatctattctgttttggtcagtatatgtacttcaaccaaggtgtatgtatatatcaatgatacttatagactaagcttacttttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA