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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATGgtacacttcttttattgtgtgttcttctatgaaaatttatagcttattcacatagcaagtaatgaccttaatattttttctttaaatctcacttattagt...

Basic information

species Glycine max
transcript GLYMA11G07910.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G07910.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv04s0023g02970.t01 (Vitis vinifera), 5'ss of exon 14
GTGATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGAT---------GATGgtacactt--------cttttattgtgtgttcttctatgaaaatttatag-------cttattcaca--tagcaagtaatgaccttaatattttttctttaaatctc----acttattagt--------------------------------------------------
|| |||||||||||||||||||||||  ||||||||||||| || ||||          ||||||  |||        ||  | | |  |||| |    |  || |||  |        ||| | ||||     |    |   ||||  | |  |     || |  | |    | || | | |                                                  
GTAATGAAGAATGGATATATTGCAACTGTAACTCTCTTCCAGTCGTGATTAAACATTGAATGgtatgctttgtcggtcctcatttggaatgttgtctccttgaattttgaaaaactattcttctccacagtcgacgcacacatacctcgagagctggctattgacacactgagatttttcaatgttgattatgtcatgtccatcagcactgattagacactaccattttgcag
















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|15662145|gb|BI699516.1|BI699516
EST:     GGATATATTGCAACAATAACTCTCTTCCAATCATGATGATG                         GCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
genomic: GGATATATTGCAACAATAACTCTCTTCCAATCATGATGATGgtacacttct ... attactgcagGCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
EST: gi|11687754|gb|BF595430.1|BF595430
EST:     ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATG                         GCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
genomic: ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATGgtacacttct ... attactgcagGCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
EST: gi|51343377|gb|CO984110.1|CO984110
EST:     ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATG                         GCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
genomic: ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATGgtacacttct ... attactgcagGCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
EST: gi|18039193|gb|BM307487.1|BM307487
EST:     ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATG                         GCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
genomic: ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATGgtacacttct ... attactgcagGCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
EST: gi|192324841|gb|FK015352.1|FK015352
EST:     ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATG                         GCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATC
genomic: ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATGgtacacttct ... attactgcagGCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATC
EST: gi|254331134|gb|GR843253.1|GR843253
EST:     ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATG                         GCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
genomic: ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATGgtacacttct ... attactgcagGCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
EST: gi|208290003|gb|GE082683.1|GE082683
EST:     ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAGTCATGATGATG                         GCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
genomic: ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATGgtacacttct ... attactgcagGCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
EST: gi|21257365|gb|BQ454253.1|BQ454253
EST:     ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATG                         GCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
genomic: ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATGgtacacttct ... attactgcagGCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
EST: gi|213597190|gb|DB981582.1|DB981582
EST:     ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATG                         GCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
genomic: ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATGgtacacttct ... attactgcagGCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
EST: gi|5666923|gb|AI930959.1|AI930959
EST:     ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATG                         GCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
genomic: ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATGgtacacttct ... attactgcagGCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
EST: gi|9984165|gb|BE658273.1|BE658273
EST:     ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATG                         GCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
genomic: ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATGgtacacttct ... attactgcagGCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
EST: gi|18720306|gb|BM523249.1|BM523249
EST:     ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATG                         GCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
genomic: ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATGgtacacttct ... attactgcagGCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
EST: gi|120533133|gb|EH261266.1|EH261266
EST:     ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATG                         GCGCTTTTGGTTACTCTCAATCTCATCTCCATA
genomic: ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATGgtacacttct ... attactgcagGCGCTTTTGGTTACTCTCAATCTCATCTCCATA
EST: gi|254331133|gb|GR843252.1|GR843252
EST:     ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATG                         GCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
genomic: ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATGgtacacttct ... attactgcagGCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
EST: gi|11689775|gb|BF597451.1|BF597451
EST:     ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATG                         GCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA
genomic: ATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATGgtacacttct ... attactgcagGCGCTTTTGGTTACTCTCAATCTCATCTCCATATTGTTCTAAGATCTATCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGATGAAGAATGGATATATTGCAACAATAACTCTCTTCCAATCATGATGATGgtacacttcttttattgtgtgttcttctatgaaaatttatagcttattcacatagcaagtaatgaccttaatattttttctttaaatctcacttattagt

- - TGAAGA