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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGGCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTGgtaatgctcacttttcttcggattgtttccggacattaacaaattataatctattccacaagtttaatccattgcatgcataatttgttagtggcttggt...

Basic information

species Glycine max
transcript GLYMA16G27020.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G27020.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv08s0007g07280.t01 (Vitis vinifera), 5'ss of exon 6
GTGGGCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTGgtaatgctcacttttcttcggattgtttccggacattaa-caaattataatctattccacaagtttaatccattgcatgcataatttgttagtg-gcttggt-----------------------------------------------------------------------------------
|||| |||||||||||||| || ||||||||||||||||  ||||| | ||||||||||     | | ||| |  ||| | |      || ||  | |  ||  ||  |     |  || |  |  ||    |  | ||      |||  || ||                                                                                    
GTGGACATGAACTCAGCAAAACAACTGGGAATGCTGGTGGCAGAGTTGGATGTGgtaat-----catctctcca-attatcttatagtatcaagtatagaattctcagtagagtagattaagacagttattagtgtgatgaaactgtgcactcggctgcctcttgttggaccaggaactttaattttcccccaaatctgcatatatgtaggagcctgacattggtataatcttttgcag
















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|31470014|gb|CD412042.1|CD412042
EST:     GCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTG                         GTATCATCGGGCTCCAGTAATCTGTTTAGGATAGTTTACCTAAAGATGATG
genomic: GCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTGgtaatgctca ... tgttgatcagGTATCATCGGGCTCCAGTCATCTGTTTAGGATAGTTTACCTAAAGATGATG
EST: gi|31470725|gb|CD412753.1|CD412753
EST:     GCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTG                         GTATCATCGGGCTCCAGTTATCTGTTTAGGATAGTTTACCTAAAGATGATG
genomic: GCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTGgtaatgctca ... tgttgatcagGTATCATCGGGCTCCAGTCATCTGTTTAGGATAGTTTACCTAAAGATGATG
EST: gi|7146773|gb|AW508695.1|AW508695
EST:     GCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTG                         GTATCATCGGGCTCCAGTCATCTGTTTAGGATAGTTTACCTAAAGATGATG
genomic: GCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTGgtaatgctca ... tgttgatcagGTATCATCGGGCTCCAGTCATCTGTTTAGGATAGTTTACCTAAAGATGATG
EST: gi|209702151|gb|BW677951.1|BW677951
EST:     GCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTG                         GTATCATCGGGCTCCAGTCATCTGTTTAGGATAGTTTACCTAAAGATGATG
genomic: GCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTGgtaatgctca ... tgttgatcagGTATCATCGGGCTCCAGTCATCTGTTTAGGATAGTTTACCTAAAGATGATG
EST: gi|6747004|gb|AW317460.1|AW317460
EST:     GCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTG                         GTATCATCGGGCTCCAGTCATCTGTTTAGGATAGTTTACCTAAAGATGATG
genomic: GCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTGgtaatgctca ... tgttgatcagGTATCATCGGGCTCCAGTCATCTGTTTAGGATAGTTTACCTAAAGATGATG
EST: gi|31472202|gb|CD414230.1|CD414230
EST:     GCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTG                         GTATCATCGGGCTCCAGTCATCTGTTTAGGATAGTTTACCTAAAGATGATG
genomic: GCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTGgtaatgctca ... tgttgatcagGTATCATCGGGCTCCAGTCATCTGTTTAGGATAGTTTACCTAAAGATGATG
EST: gi|209702150|gb|BW677950.1|BW677950
EST:     GCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTG                         GTATCATCGGGCTCCAGTCATCTGTTTAGGATAGTTTACCTAAAGATGATG
genomic: GCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTGgtaatgctca ... tgttgatcagGTATCATCGGGCTCCAGTCATCTGTTTAGGATAGTTTACCTAAAGATGATG
EST: gi|10255867|gb|BE823633.1|BE823633
EST:     GCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTG                         GTATCATCGGGCTCCAGTCATCTGTTTAGGATAGTTTACCTAAAGATGATG
genomic: GCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTGgtaatgctca ... tgttgatcagGTATCATCGGGCTCCAGTCATCTGTTTAGGATAGTTTACCTAAAGATGATG
EST: gi|298197096|gb|HO041839.1|HO041839
EST:     GCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTG                         GTATCATCGGGCTCCAGTCATCTGTTTAGGATAGTTTAC
genomic: GCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTGgtaatgctca ... tgttgatcagGTATCATCGGGCTCCAGTCATCTGTTTAGGATAGTTTAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGGGCATGAACTCAGCAAGACTACTGGGAATGCTGGTGCAAGAGTAGCATGTGgtaatgctcacttttcttcggattgtttccggacattaacaaattataatctattccacaagtttaatccattgcatgcataatttgttagtggcttggt

- - - - - - - AGCAAG
- - - - - - -  GCAAGA
- - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - GCAAGA