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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTATCCTATGCTGGAGAGGATAAGTCCAGGAACAAGAAAGCTAGAACTATTTGCTCGCATGCACAATACTCATGCAGGgtaggttttcttgactggtgtttttccttgagtttttctttcatggtattcttgaaatagtttgatagagattaatgtagtctaaaaatgaaattgtttt...

Basic information

species Glycine max
transcript GLYMA16G03690.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G03690.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv02s0025g02400.t01 (Vitis vinifera), 5'ss of exon 6
ATGTATCCTATGCTGGAGAGGATAAGTCCAGGAACAAGAAAGCTAGAACTATTTGCTCGCATGCACAATACTCATGCAGGgtaggttttcttgactggt-gtttttccttgagtttttctttcatggtattcttgaaatagtttgatagagattaatgtagtctaaaaatgaaattgtttt-
||||| || |||||||| |||||||| ||| |||| |||||||| ||| | |||||||| ||||| || |||||||||||||| | |||||| || |   ||  | | ||   ||||| | |  |     |  |||||     |  |     || || |  | ||  | |  | || |    
ATGTACCCAATGCTGGAAAGGATAAGCCCACGAACCAGAAAGCTGGAATTGTTTGCTCGGATGCATAACACTCATGCAGGgtatgctttcttaaccgacagtagtgctttttatttttttattctttcccttctgaaa--accttgtttctcttcatctgttttattattttatttataaat

upper sequence: GLYMA16G03690.1 (Glycine max), 5'ss of exon 7
lower sequence: PP1S249_97V6.1 (Physcomitrella patens), 5'ss of exon 7
ATGTATCCTATGCTGGAGAGGATAAGTCCAGGAACAAGAAAGCTAGAACTATTTGCTCGCATGCACAATACTCATGCAGGgtaggttttcttgactggtgtttttccttgagtttttctttcatggtattcttgaaatagtttgatagagattaatgtagtctaaaaatgaaattgtttt-
||||||||| || |||| || ||||| ||| ||||| |||| || ||  ||||||| || |||||||| |||||||||||||| |||  | |   |  | | |  | |  | || ||  || || |  |  ||  || |   |  |     |  || |||  |||  |   ||||  |   
ATGTATCCTTTGTTGGAAAGAATAAGCCCAAGAACACGAAAACTGGAGTTATTTGCCCGAATGCACAACACTCATGCAGGgtatgttg-catattttctatctaacgtgtatttgtttcttgattgcttcttttgaaaacaatattgtttttatatttagattaatgaatgaattaatgaa
















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|51335664|gb|CO979530.1|CO979530
EST:     GGAACAAGAAAGCTAGAACTATTTGCTCGCATGCACAATACTCATGCAGG                         ATGGATGTCTCTTGGTAATCAATTGAGTGGTGTAAGGTTGGTGGATGAGGG
genomic: GGAACAAGAAAGCTAGAACTATTTGCTCGCATGCACAATACTCATGCAGGgtaggttttc ... tctgcaccagATGGATGTCTCTTGGTAATCAATTGAGTGGTGTAAGGTTGGTGGATGAGGG
EST: gi|151397740|gb|EV267613.1|EV267613
EST:     GGAACAAGAAAGCTAGAACTATTTGCTCGCATGCACAATACTCATGCAGG                         ATGGATGTCTCTTGGTAATCAATTGAGTGGTGTAAGGTTGGTGGATGAGGG
genomic: GGAACAAGAAAGCTAGAACTATTTGCTCGCATGCACAATACTCATGCAGGgtaggttttc ... tctgcaccagATGGATGTCTCTTGGTAATCAATTGAGTGGTGTAAGGTTGGTGGATGAGGG
EST: gi|192306781|gb|FG998148.1|FG998148
EST:     GGAACAAGAAAGCTAGAACTATTTGCTCGCATGCACAATACTCATGCAGG                         ATGGATGTCTCTTGGTAATCAATTGAGTGGTGTAAGGTTGGTGGATGAGGG
genomic: GGAACAAGAAAGCTAGAACTATTTGCTCGCATGCACAATACTCATGCAGGgtaggttttc ... tctgcaccagATGGATGTCTCTTGGTAATCAATTGAGTGGTGTAAGGTTGGTGGATGAGGG
EST: gi|51341858|gb|CO983175.1|CO983175
EST:     GGAACAAGAAAGCTAGAACTATTTGCTCGCATGCACAATACTCATGCAGG                         ATGGATGTCTCTTGGTAATCAATTGAGTGGTGTAAGGTTGGTGGATGAGGG
genomic: GGAACAAGAAAGCTAGAACTATTTGCTCGCATGCACAATACTCATGCAGGgtaggttttc ... tctgcaccagATGGATGTCTCTTGGTAATCAATTGAGTGGTGTAAGGTTGGTGGATGAGGG
EST: gi|5058217|gb|AI736693.1|AI736693
EST:     GGAACAAGAAAGCTAGAACTATTTGCTCGCATGCACAATACTCATGCAGG                         ATGGATGTCTCTTGGTAATCAATTGAGTGGTGTAAGGTTGGTGGATGAGGG
genomic: GGAACAAGAAAGCTAGAACTATTTGCTCGCATGCACAATACTCATGCAGGgtaggttttc ... tctgcaccagATGGATGTCTCTTGGTAATCAATTGAGTGGTGTAAGGTTGGTGGATGAGGG
EST: gi|151403265|gb|EV273075.1|EV273075
EST:     GGAACAAGAAAGCTAGAACTATTTGCTCGCATGCACAATACTCATGCAGG                         ATGGATGTCTCTTGGTAATCAATTGAGTGGTGTAAGGTTGGTGGATGAGGG
genomic: GGAACAAGAAAGCTAGAACTATTTGCTCGCATGCACAATACTCATGCAGGgtaggttttc ... tctgcaccagATGGATGTCTCTTGGTAATCAATTGAGTGGTGTAAGGTTGGTGGATGAGGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGTATCCTATGCTGGAGAGGATAAGTCCAGGAACAAGAAAGCTAGAACTATTTGCTCGCATGCACAATACTCATGCAGGgtaggttttcttgactggtgtttttccttgagtttttctttcatggtattcttgaaatagtttgatagagattaatgtagtctaaaaatgaaattgtttt

- - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaatgaaa