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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTACGAAAAAGCAAGACCTATTTTCTGCCTACAAACTTACACAGGAAGACATAGAAGAGATTGAAAATTTGGCTAAAGACCCTCGAATTGGAGAAAGGgtgtgttccttagaattttaattctttcaatttgattattgttctgtaatgtgatgtgctatggattgaatttcag

Basic information

species Glycine max
transcript GLYMA07G36680.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G36680.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv01s0150g00390.t01 (Vitis vinifera), 5'ss of exon 8
TGTTACGAAAAAGCAAGACCTATTTTCTGCCTACAAACTTACACAGGAAGACATAGAAGAGATTGAAAATTTGGCTAAAGACCCTCGAATTGGAGAAAGGgtgtgttccttagaatttt-------aattctttcaatttgattattgttctgtaatgtgatgtgctatggattgaatttcag
||| || || ||||| || || |||||||| ||||||||||| ||||| |||| ||| || ||||| || ||||||||||| ||  | |||||||||||||| |||| ||||| ||  |       || ||| ||  ||  || ||  ||   | |    |  |  ||||  |  ||||||||
TGTCACAAAGAAGCAGGATCTCTTTTCTGCTTACAAACTTACCCAGGAGGACAAAGAGGAAATTGAGAAGTTGGCTAAAGATCCCAGGATTGGAGAAAGGgtttgttacttagcatgctttttatcaactctctctgttatatcatgatttactcacaaaagtt--tatgactaaaatttcag
















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|193354083|gb|FK322091.1|FK322091
EST:     CATAGAAGAGATTGAAAATTTAGGCTAAAGACCCTCGAATTGGAGAAAGG                         ATTGTTAAGTCTATTGCTCCATCAATCTATGGTCACGATGACATAAAAACT
genomic: CATAGAAGAGATTGAAAATTT-GGCTAAAGACCCTCGAATTGGAGAAAGGgtgtgttcct ... tgaatttcagATTGTTAAGTCTATTGCTCCATCAATCTATGGTCACGATGACATAAAAACT
EST: gi|193648136|gb|FK597037.1|FK597037
EST:     ACATAGAAGAGATTGAAAATTTGGCTAAAGACCCTCGAATTGGAGAAAGG                         ATTGTTAAGTCTATTGCTCCATCAATCTATGGTCACGATGACA
genomic: ACATAGAAGAGATTGAAAATTTGGCTAAAGACCCTCGAATTGGAGAAAGGgtgtgttcct ... tgaatttcagATTGTTAAGTCTATTGCTCCATCAATCTATGGTCACGATGACA
EST: gi|208125019|gb|GD925179.1|GD925179
EST:     ACATAGAAGAGATTGAAAATTTGGCTAAAGACCCTCGAATTGGAGAAAGG                         ATTGTTAAGTCTATTGCTCCATCA
genomic: ACATAGAAGAGATTGAAAATTTGGCTAAAGACCCTCGAATTGGAGAAAGGgtgtgttcct ... tgaatttcagATTGTTAAGTCTATTGCTCCATCA
EST: gi|193435424|gb|FK400708.1|FK400708
EST:     CATAGAAGAGATTGAAAATTTGGCTAAAGAACCCTCGAATTGGAGAAAGG                         ATTGTTAAGTCTATTGCTCCATCAATCTATGGTCACGATGACATAAAAACT
genomic: CATAGAAGAGATTGAAAATTTGGCTAAAGA-CCCTCGAATTGGAGAAAGGgtgtgttcct ... tgaatttcagATTGTTAAGTCTATTGCTCCATCAATCTATGGTCACGATGACATAAAAACT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTTACGAAAAAGCAAGACCTATTTTCTGCCTACAAACTTACACAGGAAGACATAGAAGAGATTGAAAATTTGGCTAAAGACCCTCGAATTGGAGAAAGGgtgtgttccttagaattttaattctttcaatttgattattgttctgtaatgtgatgtgctatggattgaatttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA