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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGTATTAACCGGTCTGGTTGGAGCAAATTTTGTGCAAGCAACCCTTGATAAACTCAGCTTTCGTGATCCAATTGCTCGGGGAATAGCAACTGCTTCTAGgtatattctgtgatcaatagatagtttacttaaccaaaatcccattttcactgcattccaaaacttccactgccacaagttaaaggtcaccaacattttt...

Basic information

species Glycine max
transcript GLYMA16G15800.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G15800.1 (Glycine max), 5'ss of exon 7
lower sequence: AT1G32080.1 (Arabidopsis thaliana), 5'ss of exon 7
TTGTATTAACCGGTCTGGTTGGAGCAAATTTTGTGCAAGCAACCCTTGATAAACTCAGCTTTCGTGATCCAATTGCTCGGGGAATAGCAACTGCTTCTAGgtatattctgtgatcaatagatagtttacttaaccaaaatcccattttcactgcattccaaaacttccactgccacaagttaaaggtcaccaacattttt-------
| ||  | || |||||| ||||||| || ||||| ||||     ||||| |||||  | || ||||||||||||||||||||||| ||||||||||| ||||  | ||  | | ||| ||||  || || |      |||   | ||    ||||||  ||  |    |    || |||  |        | |  ||||        
TCGTTGTGACTGGTCTGATTGGAGCTAACTTTGTACAAGTTGTTCTTGACAAACTGCGTTTACGTGATCCAATTGCTCGGGGAATTGCAACTGCTTCAAGgtg-actccatta-caaaagatctttcacat--tttgaattaaaatt---atgcatt--aatgccattaggatcaaaagacatgacctttctattttttatggacag

upper sequence: GLYMA16G15800.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv08s0056g01690.t01 (Vitis vinifera), 5'ss of exon 7
TTGTATTAACCGGTCTGGTTGGAGCAAATTTTGTGCAAGCAACCCTTGATAAACTCAGCTTTCGTGATCCAATTGCTCGGGGAATAGCAACTGCTTCTAGgtatat----tctgtgatcaatagatagtttacttaaccaaaatcccattttcactgcattccaaaacttccactgccacaagttaaaggtcaccaacattttt
||||| |||| |||||||||||||| |||||||||||||||   |||||||| || |  || || ||||| |||||||| |||||||||||||| ||||||||| |    | | | | |     ||| | ||   |    | ||     ||| |    |||  |   | |       || |   || |     | | | |    
TTGTACTAACTGGTCTGGTTGGAGCTAATTTTGTGCAAGCAGTGCTTGATAAGCTAAAATTCCGAGATCCTATTGCTCGAGGAATAGCAACTGCATCTAGgtatgtatagtttcttaccttacaatattatatccatgagatatgtatatttaaggatattgtatcccattggaaatcatatcctatactatcctatcct----
















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|193654187|gb|FK600507.1|FK600507
EST:     TCGGGGAATAGCAACTGCTTCTAG                         TGCCCACGGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCCGAGGCTCT
genomic: TCGGGGAATAGCAACTGCTTCTAGgtatattctg ... tatttttcagTGCCCACGGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCCGAGGCTCT
EST: gi|208143318|gb|GD943232.1|GD943232
EST:     CGGGGAATAGCAACTGCTTCTAG                         TGCCCACGGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCCGAGGCTCT
genomic: CGGGGAATAGCAACTGCTTCTAGgtatattctg ... tatttttcagTGCCCACGGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCCGAGGCTCT
EST: gi|193553211|gb|FK510380.1|FK510380
EST:     TCGGGGAATAGCAACTGCTTCTAG                         TGCCCACGGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCCGAGGCTCT
genomic: TCGGGGAATAGCAACTGCTTCTAGgtatattctg ... tatttttcagTGCCCACGGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCCGAGGCTCT
EST: gi|23064463|gb|BU579236.1|BU579236
EST:     AAACTCAGCTTTCGTGATCCAATTGCTCGGGGAATAGCAACTGCTTCTAG                         TGCCCACGGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCCGAGGCTCT
genomic: AAACTCAGCTTTCGTGATCCAATTGCTCGGGGAATAGCAACTGCTTCTAGgtatattctg ... tatttttcagTGCCCACGGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCCGAGGCTCT
EST: gi|11274277|gb|BF324645.1|BF324645
EST:     AAACTCAGCTTTCGTGATCCAATTGCTCGGGGAATAGCAACTGCTTCTAG                         TGCCCACGGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCCGAGGCTCT
genomic: AAACTCAGCTTTCGTGATCCAATTGCTCGGGGAATAGCAACTGCTTCTAGgtatattctg ... tatttttcagTGCCCACGGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCCGAGGCTCT
EST: gi|193546865|gb|FK501390.1|FK501390
EST:     TCGGGGAATAGCAACTGCTTCTAG                         TGCCCACGGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCCGAGGCTCT
genomic: TCGGGGAATAGCAACTGCTTCTAGgtatattctg ... tatttttcagTGCCCACGGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCCGAGGCTCT
EST: gi|51337909|gb|CO981775.1|CO981775
EST:     AAACTCAGCTTTCGTGATCCAATTGCTCGGGGAATAGCAACTGCTTCTAG                         TGCCCACGGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCCGAGGCTCT
genomic: AAACTCAGCTTTCGTGATCCAATTGCTCGGGGAATAGCAACTGCTTCTAGgtatattctg ... tatttttcagTGCCCACGGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCCGAGGCTCT
EST: gi|193416158|gb|FK376708.1|FK376708
EST:     TCGGGGAATAGCAACTGCTTCTAG                         TGCCCACGGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCCGAGGCTCT
genomic: TCGGGGAATAGCAACTGCTTCTAGgtatattctg ... tatttttcagTGCCCACGGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCCGAGGCTCT
EST: gi|193559544|gb|FK512971.1|FK512971
EST:     TCGGGGAATAGCAACTGCTTCTAG                         TGCCCACGGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCCGAGGCTCT
genomic: TCGGGGAATAGCAACTGCTTCTAGgtatattctg ... tatttttcagTGCCCACGGGCTTGGAACAGCAGCTTTGTCTGCCAAGGAACCCGAGGCTCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGTATTAACCGGTCTGGTTGGAGCAAATTTTGTGCAAGCAACCCTTGATAAACTCAGCTTTCGTGATCCAATTGCTCGGGGAATAGCAACTGCTTCTAGgtatattctgtgatcaatagatagtttacttaaccaaaatcccattttcactgcattccaaaacttccactgccacaagttaaaggtcaccaacattttt

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