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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCAACTCTTGCTAAAGAGCAAGGGAAGAATAATGTTGCATTCCTTTGCTTATTCATGTTGGGTAAACTTGAGGACTGCCTTCAACTTTTGGTAGAAAGgtattattctactgttgtgatcttttattaatgacatcactgtacagagagagaaagagagggttgattagaatgcagtttgatgtagctgagttatgcttttggcag

Basic information

species Glycine max
transcript GLYMA08G22140.1
intron # 20
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 20
lower sequence: LOC_Os02g11840.2 (Oryza sativa), 5'ss of exon 11
TTGCAACTCTTGCTAAAGAGCAAGGGAAGAATAATGTTGCATTCCTTTGCTTATTCATGTTGGGTAAACTTGAGGACTGCCTTCAACTTTTGGTAGAAAGgtattattctactgttgtga-tcttttattaatgacatcactgtacagagagagaaagagagggttgattagaatgcagtttgatgtagctgagttatgcttttggcag
|  || || | |||||||| ||||||||||| |||||||| |||||||| || |||||| | || |||||||| || ||||||||  | ||  | ||||||||||    |  ||    || | |  ||||  | | |  ||  | |  |   |||||       ||  |||   |   ||  |||   | |    ||| || |   |||
TAACATCTATGGCTAAAGAACAAGGGAAGAACAATGTTGCTTTCCTTTGTTTCTTCATGCTAGGAAAACTTGAAGAATGCCTTCAGTTGTTAATCGAAAGgtattgccat-ttgccaagactatcctatt--taatagtacaatgcttattcagaaaatatatttt--ttattttatggt--gatcacgtta---tattctctatacag

upper sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 20
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 5'ss of exon 20
TTGCAACTCTTGCTAAAGAGCAAGGGAAGAATAATGTTGCATTCCTTTGCTTATTCATGTTGGGTAAACTTGAGGACTGCCTTCAACTTTTGGTAGAAAGgtattattctactgttgtga-tcttttattaatgacatcactgtacagagagagaaagagagggttgattagaatgcagtttgatgtagctgagttatgcttttggcag
|  || || | |||||||| ||||||||||| |||||||| |||||||| || |||||| | || ||||| || || || |||||| | ||  | ||||||||||    |  ||    || | |  ||||  | | |  ||  | |  |   |||||  |    ||  |||   |   ||  |||   | |    ||| || |   |||
TAACATCTATGGCTAAAGAACAAGGGAAGAACAATGTTGCTTTCCTTTGTTTCTTCATGCTTGGAAAACTGGAAGAATGTCTTCAATTGTTAATCGAAAGgtattgccat-ttgccaagactatcctatt--taatagtacaatgcttattcagaaaatgtatttt--ttattttatggt--gatcacgtta---tattctctatacag

upper sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 20
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 24
TTGCAACTCTTGCTAAAGAGCAAGGGAAGAATAATGTTGCATTCCTTTGCTTATTCATGTTGGGTAAACTTGAGGACTGCCTTCAACTTTTGGTAGAAAGgtattat-tctactgttgtgatcttttattaatgacat-cactgtacagagagagaaagagagggttgattagaatgcagtttgatgtagctgagttatgcttttggcag
| ||| | ||||| ||||||||||| ||||| ||||| || || |||||||| |||||||||||| || | || |||||||| || || ||||| ||||||||   | | |||| ||    ||||  ||     ||||  | |      |   |  | |     | ||||   |||   |||  |                         
TGGCAGCACTTGCAAAAGAGCAAGGAAAGAACAATGTCGCTTTTCTTTGCTTGTTCATGTTGGGTCAAGTAGAAGACTGCCTGCATCTGTTGGTGGAAAGgtacattgtttactatt----tcttacatgtggaacatatattcccgcaactaattacgtctatgctgatattaatatggttacag------------------------

upper sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 20
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 20
TTGCAACTCTTGCTAAAGAGCAAGGGAAGAATAATGTTGCATTCCTTTGCTTATTCATGTTGGGTAAACTTGAGGACTGCCTTCAACTTTTGGTAGAAAGgtattattctactgttgtgatcttttattaatgacatcactgtacagagagagaaagagagggttgattagaatgcagtttgatgtagctgagttatgcttttggcag
||||||| ||||||||||| ||||||||||| ||||| || || |||||| |||||||| |||||||||| || || ||  | ||  | ||||| || |||||                ||   ||| || | || | |  ||   || |   |||       || ||     |   |||   ||| |      |||  |||   |||
TTGCAACACTTGCTAAAGAACAAGGGAAGAACAATGTCGCCTTTCTTTGCCTATTCATGCTGGGTAAACTGGAAGATTGTTTGCAGTTATTGGTGGAGAGgta----------------attcattagtagtcacttgagagtttggaaaatcaaa-------tttatgcacctttggttaactgt-gtgacaatattttttcctcag

upper sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 20
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 20
TTGCAACTCTTGCTAAAGAGCAAGGGAAGAATAATGTTGCATTCCTTTGCTTATTCATGTTGGGTAAACTTGAGGACTGCCTTCAACTTTTGGTAGAAAGgtattattctactgttgtgatcttttattaatgacatcactgtacagagagagaaagagagggttgattagaatgcagtttgatgtagctgagttatgcttttggcag
||||| | ||||||||||| || |||||||| || ||||| |||||||| || ||||||||||||||| | || || || || || || ||||| || |||||       | ||||||    | ||| |    ||||      | ||| ||     ||||   |  | |    |   |   ||||   ||||   || || || ||||
TTGCATCCCTTGCTAAAGAACAGGGGAAGAACAACGTTGCCTTCCTTTGTTTGTTCATGTTGGGTAAATTGGAAGAGTGTCTGCAGCTGTTGGTGGACAGgta-------attgttgt----tgttactgcaaacatgggaacaaagatagttgtggagatattccact----tttgg---gatgatactgaagcattctctttgcag

upper sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 20
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 20
TTGCAACTCTTGCTAAAGAGCAAGGGAAGAATAATGTTGCATTCCTTTGCTTATTCATGTTGGGTAAACTTGAGGACTGCCTTCAACTTTTGGTAGAAAGgta-ttattctactgt---tgtgatctttta---ttaa-tgacatcactgtacagagagagaaagagagggttgattaga-atgcagtttgatg-tagctgagttatgcttttggcag---------------------------------------------
|||   | || |||||| |||| |||||||||||||| ||||||||||| ||||||| | |||||||| | || || |||||||| || ||||| || ||||| | ||| | ||     | | | | |  |   | || ||     |||        | | |   |     || |||  | |  || | || || ||| | |  ||||     || ||                                             
TTGTTTCACTGGCTAAAAAGCAGGGGAAGAATAATGTCGCATTCCTTTGTTTATTCACGCTGGGTAAATTGGAAGAGTGCCTTCAGCTGTTGGTGGAGAGgtaatcattttccttaccatataaccatagaaaatcaactgctgatactaatttattacacatttacttatttcatttaacagacaatatggtggtagttta--tatgacccaggaagttgagattgagtttactgattagactctgatatggtctgttgcag

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|151397194|gb|EV267067.1|EV267067
EST:     TTATTCATGTTGGGTAAACTTGAGGACTGCCTTCAACTTTTGGTAGAAAG                         CAATCGGATTCCAGAGGCTGCTTTAATGGCTCGATCCTATCTCCCAAGCAA
genomic: TTATTCATGTTGGGTAAACTTGAGGACTGCCTTCAACTTTTGGTAGAAAGgtattattct ... cttttggcagCAATCGGATTCCAGAGGCTGCTTTAATGGCTCGATCCTATCTCCCAAGCAA
EST: gi|151411223|gb|EV281034.1|EV281034
EST:     TTATTCATGTTGGGTAAACTTGAGGACTGCCTTCAACTTTTGGTAGAAAG                         CAATCGGATTCCAGAGGCTGCTTTAATGGCTCGATCCTATCTCCCAAGCAA
genomic: TTATTCATGTTGGGTAAACTTGAGGACTGCCTTCAACTTTTGGTAGAAAGgtattattct ... cttttggcagCAATCGGATTCCAGAGGCTGCTTTAATGGCTCGATCCTATCTCCCAAGCAA