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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGCTCTTGGCTAAGGCAAAGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattacttgaaacatttatttttcatgaacttgaccatgatcgaataaccaagattgattgcttcgtataaacagtctagtagattgtaacgaaatgcgaaattttagtggtggacttttacatcacattcacatgttgtcagattgcaacactgaactgattaaaattaatctctaccatatctggttattgtag

Basic information

species Glycine max
transcript GLYMA15G00560.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G00560.1 (Glycine max), 5'ss of exon 9
lower sequence: AT1G16880.1 (Arabidopsis thaliana), 5'ss of exon 9
GGGCTCTTGGCTAAGGCAAAGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattacttgaaa-----catttatttttcatgaacttgaccatgatcgaataaccaagattgattgcttcgtataaacagtctagtagattgtaacgaaatgcgaaattttagtggtggacttttacatcacattcacatgttgtcagattgcaacactgaactgattaaaattaatctctaccatatctggttattgtag
||  | ||||||||||  ||||||||||| | ||||| | | |||||||| |||||||||||||||| ||| ||     |||||     | ||| | ||| || |  |  |   |  |     ||   | ||  | |  || ||||    ||                                                                                                                         
GGTTTGTTGGCTAAGGTGAAGTTTCATGTAAGCTACAGGAACAAAGCCCTAATCAAGCCTCTCCAGCAGgttaaaattctgaaattagacttttctctttgataagttgaaatgtttttactgaaatgaaatcaaat--tttgtatttgtag-------------------------------------------------------------------------------------------------------------------------

upper sequence: GLYMA15G00560.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv09s0018g01780.t01 (Vitis vinifera), 5'ss of exon 9
GGGCTCTTGGCTAAGGCAAAGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattacttgaaacatttatttttcatgaacttgaccatgatcgaataaccaagattgattgcttcgtataaacagtctagtagattgtaacgaaatgcgaaattttagtggtggacttttacatcacattcacatgttgtcagattgcaacactgaactgattaaaattaatctctaccatatctggttattgtag
||  | ||||| ||||||||||||||||||| ||||   |  |||||| |||||||||||||||| | |||||| |     |           ||||     |   ||| |  | || ||| |   ||| | |  |  ||   |   |  |  ||| |  ||| |  |  ||                                                                                                
GGTTTGTTGGCCAAGGCAAAGTTTCATGTCAGCTACCGCGGAAAAGCCATCATCAAGCCTCTCCAACAGgtaaaattagcaatcagagggggattcaaactgtcttccaaggccaaaaaac-agccttgctagtctaatagttatgattga--agactaaaactagttaaga------------------------------------------------------------------------------------------------
















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|31561080|gb|CD486918.1|CD486918
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|31458838|gb|CD400866.1|CD400866
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|19270328|gb|BM886584.1|BM886584
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|14011576|gb|BG726498.1|BG726498
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|31469241|gb|CD411269.1|CD411269
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|12690601|gb|BG156937.1|BG156937
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|120528775|gb|EH256909.1|EH256909
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|31465213|gb|CD407241.1|CD407241
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|22525960|gb|BU084771.1|BU084771
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|5677446|gb|AI938576.1|AI938576
EST:     CCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: CCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|6134263|gb|AW132656.1|AW132656
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|120491081|gb|EH219248.1|EH219248
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|6227733|gb|AW156332.1|AW156332
EST:     AGTTTCATGTCAACTACAAAGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|7685965|gb|AW756613.1|AW756613
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGA
EST: gi|120494269|gb|EH222436.1|EH222436
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|214006697|gb|DB987579.1|DB987579
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|31476080|gb|CD418108.1|CD418108
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|8670314|gb|BE191421.1|BE191421
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|18038897|gb|BM307191.1|BM307191
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|31305353|gb|CD390556.1|CD390556
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|7796366|gb|AW781763.1|AW781763
EST:     TCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: TCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|22525511|gb|BU084322.1|BU084322
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|8670334|gb|BE191441.1|BE191441
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|8825880|gb|BE209610.1|BE209610
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|9902370|gb|BE611338.1|BE611338
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATNTCTTGAGGCGGCCTGAGACTGANGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|31308476|gb|CD393679.1|CD393679
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|31305762|gb|CD390965.1|CD390965
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGCCC
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|9901764|gb|BE610732.1|BE610732
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|10238330|gb|BE807146.1|BE807146
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGGAGATATTTCTTGAGGCGGCCTGAGACTGAGGA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTT-GAGATATTTCTTGAGGCGGCCTGAGACTGAGGA
EST: gi|31458576|gb|CD400604.1|CD400604
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|120497144|gb|EH225311.1|EH225311
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|22522210|gb|BU081021.1|BU081021
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GNTCTTGTTAACAGCTTGA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGA
EST: gi|120491074|gb|EH219241.1|EH219241
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
EST: gi|120531768|gb|EH259901.1|EH259901
EST:     AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTG                         GTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA
genomic: AGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattact ... gttattgtagGTTCTTGTTAACAGCTTGAGATATTTCTTGAGGCGGCCTGAGACTGAGGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGGCTCTTGGCTAAGGCAAAGTTTCATGTCAACTACAAGGATAAAGCCCTCATCAAGCCTCTCCAGCTGgtaaattacttgaaacatttatttttcatgaacttgaccatgatcgaataaccaagattgattgcttcgtataaacagtctagtagattgtaacgaaatgcgaaattttagtggtggacttttacatcacattcacatgttgtcagattgcaacactgaactgattaaaattaatctctaccatatctggttattgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG