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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAAGGATGCCAAGCAAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattgttatgacaccttaatatttgcatgttagagggttgttggtaaaaagtaaaaacactatgcgattgtttagtgcatgaaaatggacatgaa...

Basic information

species Glycine max
transcript GLYMA08G08690.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G08690.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv02s0025g02010.t01 (Vitis vinifera), 5'ss of exon 5
AGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAAGGATGCCAAGCAAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattgttatgacaccttaatatttgcatgttagagggttgttggtaaaaagtaaaaacactatgcgattgtttagtgcatgaaaatggacatgaa-
 || |||||||| ||||| || |||||||||||||| || ||||||   || |||||||||||||| || ||||| |||||  | |||||||| || ||||| |  |||||| ||  ||   ||||| |  |  |||   | |   |  | |    |       | |        || | | ||| |   || |  |    
TGGGTGCAGTGAAAAGGCATACGACTATCTTTCAATCAATGATGCCCGACATATGTTGCTGTTCTCTTCTGACCAAGAACTTTTTGAATATATCAAGGAGgtaaatattgttttgctacaacaatatctttaaattactagatgtctaattatcctttttcctgcaaaagcggctttaaatacattatt-tgcattttttt
















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|38192359|gb|CF921565.1|CF921565
EST:     AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
genomic: AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
EST: gi|10253750|gb|BE821516.1|BE821516
EST:     AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
genomic: AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
EST: gi|31470217|gb|CD412185.1|CD412185
EST:     AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
genomic: AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
EST: gi|31472558|gb|CD414586.1|CD414586
EST:     AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
genomic: AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
EST: gi|208179557|gb|GD973588.1|GD973588
EST:     TTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
genomic: TTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
EST: gi|207760274|gb|GD732701.1|GD732701
EST:     TTCTCCTACAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
genomic: TTCTCCT-CAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
EST: gi|213593322|gb|DB975401.1|DB975401
EST:     AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
genomic: AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
EST: gi|192303536|gb|FG998602.1|FG998602
EST:     AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCCTTTTTCCAAAAGGC
genomic: AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTC-TTTTTCCAAAAGGC
EST: gi|16106170|gb|BI893910.1|BI893910
EST:     AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
genomic: AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
EST: gi|192317900|gb|FK009436.1|FK009436
EST:     AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
genomic: AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
EST: gi|213603877|gb|DB982177.1|DB982177
EST:     AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
genomic: AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
EST: gi|58018381|gb|CX705123.1|CX705123
EST:     AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
genomic: AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
EST: gi|208212816|gb|GE010475.1|GE010475
EST:     TTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTACCAAAAGGC
genomic: TTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTT-CCAAAAGGC
EST: gi|213603883|gb|DB982183.1|DB982183
EST:     AAATGTTGCTGTCCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
genomic: AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
EST: gi|207840004|gb|GD810533.1|GD810533
EST:     TTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
genomic: TTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
EST: gi|192326357|gb|FK015889.1|FK015889
EST:     AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
genomic: AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
EST: gi|193644061|gb|FK591248.1|FK591248
EST:     AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
genomic: AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
EST: gi|193593562|gb|FK546654.1|FK546654
EST:     AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
genomic: AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
EST: gi|298188986|gb|HO035711.1|HO035711
EST:     AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAG
genomic: AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAG
EST: gi|6719669|gb|AW307316.1|AW307316
EST:     AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
genomic: AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCAAAAGGCA
EST: gi|192294009|gb|FG987178.1|FG987178
EST:     AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAG                         GAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCA
genomic: AAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattg ... ttttttgcagGAGCATCCTGAGTGGGAGATTAAGAATGATAGTGTCTTTTTCCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGGTTGCAGTGAGAAGGCCTATGACTATCTTTCAATTAAGGATGCCAAGCAAATGTTGCTGTTCTCCTCAGACCAGGAACTCCTGGAATATATTAAAGAGgtgagcattgttatgacaccttaatatttgcatgttagagggttgttggtaaaaagtaaaaacactatgcgattgtttagtgcatgaaaatggacatgaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtaaaaa