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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATCCAGGGCAACAGGTGCATTTATACTGACAGCAAGTCACAATCCCGGTGGCCCTAATGAGgtgagtattgtcgtgtattactttaattatttatggatgaattaaattagattaatgaatatgatgatatctgctataggaatttaatgtgtagatctct...

Basic information

species Glycine max
transcript GLYMA08G04890.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G04890.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv01s0011g05370.t01 (Vitis vinifera), 5'ss of exon 6
GGATCCAGGGCAACAGGTGCATTTATACTGACAGCAAGTCACAATCCCGGTGGCCCTAATGAGgtgagtat------tgtcgtgtattactttaattatttatggatgaattaaattagattaatgaatatga--tgatatctgctataggaatttaatgtgtagatctct
||| ||| |||| |||| ||||||||||||||||||||||||||||| ||||| || || |||||    |       |||  | | ||| |||  ||||||  |||  || |   | || ||  |    ||||  | ||||  ||    | |   |       ||      
GGAACCAAGGCATCAGGAGCATTTATACTGACAGCAAGTCACAATCCAGGTGGTCCCAACGAGgtatacacaaactgtgtaatttcttagttttcttattttagga--aaatggttcagtttggtagtcatgaattaatattggcctctgtaggatgccaaacag------
















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|7588948|gb|AW704733.1|AW704733
EST:     CTGACAGCAAGTCACAATCCCGGTGGCCCTAATGAG                         GATTTTGGGATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
genomic: CTGACAGCAAGTCACAATCCCGGTGGCCCTAATGAGgtgagtattg ... cttgttgcagGATTTTGGGATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
EST: gi|151396135|gb|EV266012.1|EV266012
EST:     CAGGTGCATTTATACTGACAGCAAGTCACAATCCCGGTGGCCCTAATGAG                         GATTTTGGGATTAAATATAATATGGAAAATGGTGGACCTGCACCAGAGGGA
genomic: CAGGTGCATTTATACTGACAGCAAGTCACAATCCCGGTGGCCCTAATGAGgtgagtattg ... cttgttgcagGATTTTGGGATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
EST: gi|7146991|gb|AW508913.1|AW508913
EST:     CAGGTGCATTTATACTGACAGCAAGTCACAATCCCGGTGGCCCTAATGAG                         GATTTTGGGATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
genomic: CAGGTGCATTTATACTGACAGCAAGTCACAATCCCGGTGGCCCTAATGAGgtgagtattg ... cttgttgcagGATTTTGGGATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
EST: gi|14259175|gb|BG882083.1|BG882083
EST:     CAGGTGCATTTATACTGACAGCAAGTCACAATCCCGGTGGCCCTAATGAG                         GATTTTGGGATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
genomic: CAGGTGCATTTATACTGACAGCAAGTCACAATCCCGGTGGCCCTAATGAGgtgagtattg ... cttgttgcagGATTTTGGGATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
EST: gi|21675862|gb|BQ628213.1|BQ628213
EST:     CAGGTGCATTTATACTGACAGCAAGTCACAATCCCGGTGGCCCTAATGAG                         GATTTTGGGATTAAATAT
genomic: CAGGTGCATTTATACTGACAGCAAGTCACAATCCCGGTGGCCCTAATGAGgtgagtattg ... cttgttgcagGATTTTGGGATTAAATAT
EST: gi|12773224|gb|BG238151.1|BG238151
EST:     CAGGTGCATTTATACTGACAGCAAGTCACAATCCCGGTGGCCCTAATGAA                         GATTTTGGGATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
genomic: CAGGTGCATTTATACTGACAGCAAGTCACAATCCCGGTGGCCCTAATGAGgtgagtattg ... cttgttgcagGATTTTGGGATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
EST: gi|33390415|gb|CA853610.1|CA853610
EST:     CAGGTGCATTTATACTGACAGCAAGTCACAATCCCGGTGGCCCTAATGAG                         GATTTTGGGATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
genomic: CAGGTGCATTTATACTGACAGCAAGTCACAATCCCGGTGGCCCTAATGAGgtgagtattg ... cttgttgcagGATTTTGGGATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
EST: gi|254323080|gb|GR839993.1|GR839993
EST:     CAGGTGCATTTATACTGACAGCAAGTCACAATCCCGGTGGCCCTAATGAG                         GATTTTGGGATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA
genomic: CAGGTGCATTTATACTGACAGCAAGTCACAATCCCGGTGGCCCTAATGAGgtgagtattg ... cttgttgcagGATTTTGGGATTAAATATAATATGGAAAACGGTGGACCTGCACCAGAGGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGATCCAGGGCAACAGGTGCATTTATACTGACAGCAAGTCACAATCCCGGTGGCCCTAATGAGgtgagtattgtcgtgtattactttaattatttatggatgaattaaattagattaatgaatatgatgatatctgctataggaatttaatgtgtagatctct

- - - - - - - - - - - - - - - - AGCAAG