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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATTCGAGAAGAATTCAAATCCTGTACAATGCTCATTATTGCTCATCGCCTAAACACCATTATTGATTGTGATCGAATTCTTTTGCTTGATGGTGGTAAGgtatgcactcaatattcaaaccatagagctggctaactcataatatagttaaagtcctttgccactggtgtaagttatactaaagttattaccttagata...

Basic information

species Glycine max
transcript GLYMA15G09900.1
intron # 25
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G09900.1 (Glycine max), 5'ss of exon 25
lower sequence: Vv10s0003g04390.t01 (Vitis vinifera), 5'ss of exon 25
AATTCGAGAAGAATTCAAATCCTGTACAATGCTCATTATTGCTCATCGCCTAAACACCATTATTGATTGTGATCGAATTCTTTTGCTTGATGGTGGTAAGgtatgcactcaatattcaaaccatagagctggctaactcataatatagttaaagtcctttgccactggtgtaagttatactaaagttattaccttagata------------------------------------------------------------------------------------------------
||| |||||||||| ||||| |||||||||||||||||||||||||| ||||| ||||| ||||||||||||||| ||||||||||||||| |||| |||| || ||||| ||||| | |||| | | | | ||| | || | ||| | | | || || |||| ||
CATTAGAGAAGAATTTAAATCATGTACAATGCTCATTATTGCTCATCGTCTAAATACCATCATTGATTGTGATCGAGTTCTTTTGCTTGATGCTGGTCGGgtacgccttcaat-ttcaa--tgtttttctggttcatttctcttatt-tccttgttgctcttgtttggaagagaaaacatgaagcttgc--ccttgaatgggaaactgctgacagatttgtatgctttcttattgaaatttttggttttatttagtcttttgtcgacgtgtcatgattttaatgtcttccactcag
















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|51335931|gb|CO979797.1|CO979797
EST:     ATTATTGATTGTGATCGAATTCTTTTGCTTGATGGTGGTAAG                         GTTCTTGAATACGATACCCCTGAGGAGCTGCTGTCAAATGAAGGTAGTGCT
genomic: ATTATTGATTGTGATCGAATTCTTTTGCTTGATGGTGGTAAGgtatgcactc ... atgtttaaagGTTCTTGAATACGATACCCCTGAGGAGCTGCTGTCAAATGAAGGTAGTGCT
EST: gi|58018586|gb|CX705328.1|CX705328
EST:     TAAACACCATTATTGATTGTGATCGAATTCTTTTGCTTGATGGTGGTAAG                         GTTC-TGNAATACGATACCCCTGAGGAGCTGCTGTCAAATGAAGGTAGTGC
genomic: TAAACACCATTATTGATTGTGATCGAATTCTTTTGCTTGATGGTGGTAAGgtatgcactc ... atgtttaaagGTTCTTG-AATACGATACCCCTGAGGAGCTGCTGTCAAATGAAGGTAGTGC
EST: gi|19270923|gb|BM887179.1|BM887179
EST:     TAAACACCATTATTGATTGTGATCGAATTCTTTTGCTTGATGGTGGTAAG                         GTTCTTGAATACGATACCCCTGAGGAGCTGCTGTCAAATGAAGGTAGTGCT
genomic: TAAACACCATTATTGATTGTGATCGAATTCTTTTGCTTGATGGTGGTAAGgtatgcactc ... atgtttaaagGTTCTTGAATACGATACCCCTGAGGAGCTGCTGTCAAATGAAGGTAGTGCT
EST: gi|18040941|gb|BM309235.1|BM309235
EST:     CATTATTGATTGTGATCGAATTCTTTTGCTTGATGGTGGTAAG                         GTTCTTGAATACGATACCCCTGAGGAGCTGCTGTCAAATGAAGGTAGTGCT
genomic: CATTATTGATTGTGATCGAATTCTTTTGCTTGATGGTGGTAAGgtatgcactc ... atgtttaaagGTTCTTGAATACGATACCCCTGAGGAGCTGCTGTCAAATGAAGGTAGTGCT
EST: gi|9900742|gb|BE609710.1|BE609710
EST:     TAAACACCATTATTGATTGTGATCGAATTCTTTTGCTTGATGGTGGTAAG                         GTTCTTGAATACGATACCCCTGAGGAGCTGCTGTCAAATGAAGGTAGTGCT
genomic: TAAACACCATTATTGATTGTGATCGAATTCTTTTGCTTGATGGTGGTAAGgtatgcactc ... atgtttaaagGTTCTTGAATACGATACCCCTGAGGAGCTGCTGTCAAATGAAGGTAGTGCT
EST: gi|7283342|gb|AW595950.1|AW595950
EST:     TAAACACCATTATTGATTGTGATCGAATTCTTTTGCTTGATGGTGGTAAG                         GTTCTTGAATACGATACCCCTGAGGAGCTGCTGTCAAATGAAGGTAGTGCT
genomic: TAAACACCATTATTGATTGTGATCGAATTCTTTTGCTTGATGGTGGTAAGgtatgcactc ... atgtttaaagGTTCTTGAATACGATACCCCTGAGGAGCTGCTGTCAAATGAAGGTAGTGCT
EST: gi|8282638|gb|BE020199.1|BE020199
EST:     TAAACACCATTATTGATTGTGATCGAATTCTTTTGCTTGATGGTGGTAAG                         GTTCTTGAATACGATACCCCTGAGGAGCTGCTGTCAAATGAAGGTAGTGCT
genomic: TAAACACCATTATTGATTGTGATCGAATTCTTTTGCTTGATGGTGGTAAGgtatgcactc ... atgtttaaagGTTCTTGAATACGATACCCCTGAGGAGCTGCTGTCAAATGAAGGTAGTGCT
EST: gi|8669733|gb|BE190840.1|BE190840
EST:     TTTGCTTGATGGTGGTAAG                         GTTCTTGAATACGATACCCCTGAGGAGCTGCTGTCAAATGAAGGTAGTGCT
genomic: TTTGCTTGATGGTGGTAAGgtatgcactc ... atgtttaaagGTTCTTGAATACGATACCCCTGAGGAGCTGCTGTCAAATGAAGGTAGTGCT
EST: gi|18040503|gb|BM308797.1|BM308797
EST:     TAAACACCATTATTGATTGTGATCGAATTCTTTTGCTTGATGGTGGTAAG                         GTTCTTGAATACGATACCCCTGAGGAGCTGCTGTCAAATGAAGGTAGTGCT
genomic: TAAACACCATTATTGATTGTGATCGAATTCTTTTGCTTGATGGTGGTAAGgtatgcactc ... atgtttaaagGTTCTTGAATACGATACCCCTGAGGAGCTGCTGTCAAATGAAGGTAGTGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATTCGAGAAGAATTCAAATCCTGTACAATGCTCATTATTGCTCATCGCCTAAACACCATTATTGATTGTGATCGAATTCTTTTGCTTGATGGTGGTAAGgtatgcactcaatattcaaaccatagagctggctaactcataatatagttaaagtcctttgccactggtgtaagttatactaaagttattaccttagata

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG