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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaactctttgtcttgtgtcctttctttttatctgcacaaatacatgttatggtactcagcattgaatgaattaattgaattattggttggtggattgattgatgaacag

Basic information

species Glycine max
transcript GLYMA10G38350.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G38350.2 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os07g27930.1 (Oryza sativa), 5'ss of exon 2
GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaactctttgtcttgtgtcctttctttttatctgcacaaatacatgttatggtactcagcattgaatgaattaattgaattattggttggtggattgattgatgaacag
||||||||||||||| ||||| || |||||||||||||||| ||  | |  |||| |  ||  || |   ||  ||     || |    | ||    || ||   |   ||   ||||                              
GTACGAGGATGAGCCCCCAGAACCTGAGATTGAGgtacagagctgct-gctttgt-tatttatttctggactttactttatcaggaagagctatgtggc-ttatttaccttttctgaacag---------------------------

upper sequence: GLYMA10G38350.2 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os08g32990.1 (Oryza sativa), 5'ss of exon 3
GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact----ctttgtcttgtgtcctttctttttatctgcacaaatacatgttatggtactcagcattgaatgaattaattgaattattggttggtggattgattgatgaacag
||||||||||||||| ||||| || |||||||||||||||| ||    ||||||  | | |   |    ||||  |   ||                                                                       
GTACGAGGATGAGCCCCCAGAACCTGAGATTGAGgtacagagctgctgctttgttatttatttctggactttactttatcag----------------------------------------------------------------------

upper sequence: GLYMA10G38350.2 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os03g38960.1 (Oryza sativa), 5'ss of exon 2
GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaactctttgtcttgtgtcctttctttttatctgcacaaatacatgttatggtactcagcattgaatgaattaattgaattattggttggtggattgattgatgaacag
||| ||||||||||||||||| || |||||||||||||| |  |   | || |   | |  |  | |||||||   |   | | |   || |     |  ||   |  | |||| |                                
GTATGAGGATGAGCCACCAGAACCTGAGATTGAGgtacacacattgctatcct-catgcagtgatgttatctgttaatggaaaagaactgatg----gagttctgttcaataatag--------------------------------

upper sequence: GLYMA10G38350.2 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os03g38960.2 (Oryza sativa), 5'ss of exon 1
--------GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgta-cagaactctttgtcttgtgtcctttctttttatctgc-acaaatacatgttatggtactcagcattgaa----tgaattaattgaattattggttggtggattg--attgatgaacag--------------
         ||   |  ||        ||    ||  |||   |  ||      |||    ||      |     | | |  | | ||    |  ||  ||||| || |||||      | |   | |    ||||  |||  ||||     | ||||| |                 
ATGTCATTTTAAAGGATTGTTTTGTTGGATATTGATTTTGGAATGGCATTGTATTTTCCTCTGCAGGTATGAGGATGAGCCACCAGAACCTGAGATTGAGgtacaca-cattgctatcctcatgcagtgatgttatctgttaatggaaaagaactgatggagttctgttcaataatag

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|254315321|gb|GR825130.1|GR825130
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|193576787|gb|FK537984.1|FK537984
EST:     GGGTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GGGTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|17023174|gb|BM094208.1|BM094208
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|298169366|gb|HO020726.1|HO020726
EST:     GTACGAGGATGAGCCACCAGAGTCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|31457537|gb|CD399565.1|CD399565
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|192303951|gb|FG993837.1|FG993837
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|298187689|gb|HO031646.1|HO031646
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|26045616|gb|CA783150.1|CA783150
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|298165196|gb|HO011245.1|HO011245
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAAC-AAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|24135619|gb|BU926129.1|BU926129
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|192316457|gb|FK008190.1|FK008190
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|151407894|gb|EV277709.1|EV277709
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|14258684|gb|BG881592.1|BG881592
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|19934747|gb|BQ079777.1|BQ079777
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|18039503|gb|BM307797.1|BM307797
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|192295900|gb|FG990910.1|FG990910
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|298192149|gb|HO036231.1|HO036231
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|16347285|gb|BI972880.1|BI972880
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|15814904|gb|BI787179.1|BI787179
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|254315322|gb|GR825131.1|GR825131
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|151403366|gb|EV273176.1|EV273176
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|7042283|gb|AW472177.1|AW472177
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|298199496|gb|HO042859.1|HO042859
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|298181130|gb|HO022569.1|HO022569
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGTAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|298197722|gb|HO045201.1|HO045201
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGGGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|298179996|gb|HO025211.1|HO025211
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGGTGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|298198238|gb|HO039777.1|HO039777
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|19935890|gb|BQ080630.1|BQ080630
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|298168737|gb|HO009667.1|HO009667
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
EST: gi|298183107|gb|HO028370.1|HO028370
EST:     GTACGAGGATGAGCCACCAGAGCCCGAGATTGAG                         GAAGGTGCAGAGGAAGGTTTGGAGAACAAAAACGATGAGTTAACTGGAGAG
genomic: GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaact ... tgatgaacagGAAGGTGCAGAGGAAGATTTGGAGAACAAAAACGATGAGTTAACTGGAGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTACGAGGATGAGCCACCAGAGCCCGAGATTGAGgtacagaactctttgtcttgtgtcctttctttttatctgcacaaatacatgttatggtactcagcattgaatgaattaattgaattattggttggtggattgattgatgaacag

- - GAGGAT
- -  AGGATG