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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAATCTAAGAGCAAGTGTTCCACTGTGGGTATCCAAGGCATTGCTTGGGCTTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAGgtaaaattcacatactagtttttttttttttttttttttttgcatataacatcttcctgttaatcattttagtattttataatatatatatttaccatcc...

Basic information

species Glycine max
transcript GLYMA03G14150.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G14150.1 (Glycine max), 5'ss of exon 1
lower sequence: EFJ18960 (Selaginella moellendorffii), 5'ss of exon 1
AAATCTAAGAGCAAGTGTTCCACTGTGGGTATCCAAGGCATTGCTTGGGCTTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAGgta---aaattcacatactagtttttttttttttttttttttttgcatataacatcttcctgttaatcatttt----agtattttataatatatatatttaccatcc
     |   | ||  ||       ||||| ||||| ||||| || |||||||||||||| |||||||||||||| || || | ||||||||||||||||||||   | ||     |  | ||||  | |    | |  | ||     || |   | ||| ||  || | || |     || |  | |  |    | | ||       
GTCGATCGCACCAGCTGCCTTGGAGTGGGCATCCAGGGCATCGCGTGGGCTTTTGGGGGCATGATCTTTGCTCTCGTCTACTGCACTGCTGGAATCTCAGgtaccaagatgagtttttttgtttcctgtgaggtgtggtgttcgagctaaagtttgttcttgcgaaactttatctcgggtgtggtgttgtcccgaaactt-------

upper sequence: GLYMA03G14150.1 (Glycine max), 5'ss of exon 1
lower sequence: EFJ11572 (Selaginella moellendorffii), 5'ss of exon 1
AAATCTAAGAGCAAGTGTTCCACTGTGGGTATCCAAGGCATTGCTTGGGCTTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAGgta---aaattcacatactagtttttt--------tttttttttttttttttgcatataacatcttcctgtta-atcattttagtattttataatatatatatttaccatcc---------------------------------------------------------------------------
     |   | ||  ||       ||||| ||||| ||||| || ||||||||||| || |||||||||||||| || || | |||||| |||||||||||||   | ||     |  | || ||          | || ||       ||| | |      |  |  |||      | ||| ||  | |   |  || |  ||  | |                                                                              
GTCGATCGCACCAGCTGCCTTGGAGTGGGCATCCAGGGCATCGCGTGGGCTTTTGGAGGCATGATCTTTGCTCTCGTCTACTGCACTGCCGGAATCTCAGgtaccaagatgagttttttggtgttcgagctaaagtgttcttgcgaaactttacctcgggtgtggtgttgtcccgaaactttggtgctgttctagctaaagtttcgcgagttctagtgttccagcgaaagttttcgtgcgagactggaaaccatagctaaaagcttgacatgttttgtttttctcag
















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|15204678|gb|BI427446.1|BI427446
EST:     TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAN                         GGGGTCATATTAACCCANCAGTGACGTTTGGGCTGTTCTTGGCACGCAAGC
genomic: TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAGgtaaaattca ... tctaatgcagGGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGGCACGCAAGC
EST: gi|213611888|gb|DB960704.1|DB960704
EST:     TTTTGCGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAG                         GGGGTCATATTAACCCAGCAGTGACGTTTGGGGCTGTTCTTGGCACGCAAG
genomic: TTTGG-GGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAGgtaaaattca ... tctaatgcagGGGGTCATATTAACCCAGCAGTGACGTTTGGG-CTGTTCTTGGCACGCAAG
EST: gi|209708999|gb|BW661859.1|BW661859
EST:     TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAG                         GGGGTCATATTAACCCAGCAGTGACGTT
genomic: TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAGgtaaaattca ... tctaatgcagGGGGTCATATTAACCCAGCAGTGACGTT
EST: gi|213614488|gb|DB972812.1|DB972812
EST:     TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAG                         GGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTC
genomic: TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAGgtaaaattca ... tctaatgcagGGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTC
EST: gi|208069285|gb|GD870047.1|GD870047
EST:     TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAG                         GGGGTCATATTAACCCAGCAGTTGTACGTTTTGGGTCTGTTCTTGGCAACG
genomic: TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAGgtaaaattca ... tctaatgcagGGGGTCATATTAACCCAGCAGT-G-ACGTTT-GGG-CTGTTCTTGGCA-CG
EST: gi|207763508|gb|GD737085.1|GD737085
EST:     TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAG                         GGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGGCACGCAAGC
genomic: TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAGgtaaaattca ... tctaatgcagGGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGGCACGCAAGC
EST: gi|298191556|gb|HO039035.1|HO039035
EST:     TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAG                         GGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGGCACGCAAGC
genomic: TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAGgtaaaattca ... tctaatgcagGGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGGCACGCAAGC
EST: gi|213598793|gb|DB968264.1|DB968264
EST:     TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAG                         GGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGG
genomic: TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAGgtaaaattca ... tctaatgcagGGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGG
EST: gi|213592670|gb|DB955814.1|DB955814
EST:     TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAG                         GGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGGCACGCAAGC
genomic: TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAGgtaaaattca ... tctaatgcagGGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGGCACGCAAGC
EST: gi|207837648|gb|GD810710.1|GD810710
EST:     TTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACGTGCTGGAATCTCAG                         GGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGGCAACGCAAG
genomic: TTTGGGGGAATGATCTTTGCTCTTGTTTATTCCAC-TGCTGGAATCTCAGgtaaaattca ... tctaatgcagGGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGGCA-CGCAAG
EST: gi|213588624|gb|DB957660.1|DB957660
EST:     TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAG                         GGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGGCACGCAAGC
genomic: TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAGgtaaaattca ... tctaatgcagGGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGGCACGCAAGC
EST: gi|151412817|gb|EV282629.1|EV282629
EST:     TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAG                         GGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGGCACGCGAGC
genomic: TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAGgtaaaattca ... tctaatgcagGGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGGCACGCAAGC
EST: gi|213599602|gb|DB968364.1|DB968364
EST:     TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAG                         GGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGGCACGCAAGC
genomic: TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAGgtaaaattca ... tctaatgcagGGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGGCACGCAAGC
EST: gi|192296869|gb|FG991910.1|FG991910
EST:     TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAG                         GGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGGCACGCAAGC
genomic: TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAGgtaaaattca ... tctaatgcagGGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGGCACGCAAGC
EST: gi|209722391|gb|BW680145.1|BW680145
EST:     TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAG                         GGGGGTCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGGCACGCAAG
genomic: TTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAGgtaaaattca ... tctaatgcagGGGG-TCATATTAACCCAGCAGTGACGTTTGGGCTGTTCTTGGCACGCAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAATCTAAGAGCAAGTGTTCCACTGTGGGTATCCAAGGCATTGCTTGGGCTTTTGGGGGAATGATCTTTGCTCTTGTTTATTCCACTGCTGGAATCTCAGgtaaaattcacatactagtttttttttttttttttttttttgcatataacatcttcctgttaatcattttagtattttataatatatatatttaccatcc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA