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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGGCTATGCTGTACCGGGCTCGGTTCTACAACTTCTGCTTTCCAAATACGGTGATGGAAGTGGTAGGAGGGTTGAACTTGGTTTTGACAGTTTTGTCGAgtaagatttttttatctgggtctttgaagagagtaaattttcattttggtagttgagagattttttaatcattaatttggtcctcgaaatgttattacat...

Basic information

species Glycine max
transcript GLYMA12G31070.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G31070.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv06s0080g00450.t01 (Vitis vinifera), 5'ss of exon 3
TTGGCTATGCTGTACCGGGCTCGGTTCTACAACTTCTGCTTTCCAAATACGGTGATGGAAGTGGTAGGAGGGTTGAACTTGGTTTTGACAGTTTTGTCGAgtaagattt-ttttatctgggtctttgaagagagtaaattttcattttggtagt-tgagagattttttaatcattaatttggtcctcgaaatgttattacat
|||| ||||| || ||| || ||||| || ||||| ||||||| || | |||| ||||||| ||||||||||||| ||||||||||||||| ||||||| || | |||| | ||| | | ||| |||| | ||| | | || |||| || ||| || | || ||
TTGGGTATGCAGTCCCGCCTTCTGTTCTCCAGGTTCTGATTTCCAAGTATGATGATCGAAGTGGCCGGAGGGTTGAACTCAATTTTGACAGTTTTGTTGAgtaagtcttgtcttattgaacacattggatgcaaattttttagatttagaaagtgtcttaacagttctaatgttttgttttgt--tggatgtgcag------
















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|6072701|gb|AW102088.1|AW102088
EST:     GGTGATGGAAGTGGTAGGAGGGTTGAACTTGGTTTTGACAGTTTTGTCGA                         GTGTGGGATGATTATTAAG
genomic: GGTGATGGAAGTGGTAGGAGGGTTGAACTTGGTTTTGACAGTTTTGTCGAgtaagatttt ... atgtatgcagGTGTGGGATGATTATTAAG
EST: gi|37995098|gb|CF806687.1|CF806687
EST:     GGTGATGGAAGTGGTAGGAGGGTTGAACTTGGTTTTGACAGTTTTGTCGA                         GAGTGGGATGATTATTAAG
genomic: GGTGATGGAAGTGGTAGGAGGGTTGAACTTGGTTTTGACAGTTTTGTCGAgtaagatttt ... atgtatgcagGTGTGGGATGATTATTAAG
EST: gi|4299730|gb|AI442946.1|AI442946
EST:     GGTGATGGAAGTGGTAGGAGGGTTGAACTTGGTTTTGACAGTTTTGTCGA                         GTGTGGGATGATTATTAAG
genomic: GGTGATGGAAGTGGTAGGAGGGTTGAACTTGGTTTTGACAGTTTTGTCGAgtaagatttt ... atgtatgcagGTGTGGGATGATTATTAAG
EST: gi|192295230|gb|FG986949.1|FG986949
EST:     GGTGATGGAAGTGGTAGGAGGGTTGAACTTGGTTTTGACAGTTTTGTCGA                         GTGTGGGATGATTATTAAG
genomic: GGTGATGGAAGTGGTAGGAGGGTTGAACTTGGTTTTGACAGTTTTGTCGAgtaagatttt ... atgtatgcagGTGTGGGATGATTATTAAG
EST: gi|16342198|gb|BI967793.1|BI967793
EST:     GGTGATGGAAGTGGTAGGAGGGTTGAACTTGGTTTTGACAGTTTTGTCGA                         GTGTGGGATGATTATTAAG
genomic: GGTGATGGAAGTGGTAGGAGGGTTGAACTTGGTTTTGACAGTTTTGTCGAgtaagatttt ... atgtatgcagGTGTGGGATGATTATTAAG
EST: gi|9903330|gb|BE612298.1|BE612298
EST:     GGTGATGGAAGTGGTAAGAGG-TTGAACTNGGTTT-GACAGTTT-GTCGA                         GTGTGGGATGATNATTAAG
genomic: GGTGATGGAAGTGGTAGGAGGGTTGAACTTGGTTTTGACAGTTTTGTCGAgtaagatttt ... atgtatgcagGTGTGGGATGATTATTAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGGCTATGCTGTACCGGGCTCGGTTCTACAACTTCTGCTTTCCAAATACGGTGATGGAAGTGGTAGGAGGGTTGAACTTGGTTTTGACAGTTTTGTCGAgtaagatttttttatctgggtctttgaagagagtaaattttcattttggtagttgagagattttttaatcattaatttggtcctcgaaatgttattacat

- - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG