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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatgcttgtggaatcatccatgttactagtctgggaattggttttgttgatatgagtatgactgttaacatgacattggaattttgacagGAGAGCTATTATGACAGGGAGGGCAGTGAGAGTGAATTCACAACTGAAATCTCACAAAAGATTTGCTAATGCATTTCCAAGATATTGCAAACTTGTTGAT

Basic information

species Glycine max
transcript GLYMA20G34750.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G34750.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G04280.1 (Arabidopsis thaliana), 3'ss of exon 7
---------------gtatgtatgcttgtggaatcatccatgttactagtctgggaattggtttt-gttgatatgagtatgactgttaacatgacattg-gaattttgacagGAGAGCTATTATGACAGGGAGGGCAGTGAGAGTGAATTCACAACTGAAATCTCACAAAAGATTTGCTAATGCATTTCCAAGATATTGCAAACTTGTTGAT
               || |  |   ||  | ||  ||   |||      | ||  | | | | || | || ||| |  |||    |    |  | |||  |  |||| | ||||||||| | |||     ||| ||||||||||||||  ||||| |||| || ||||| ||||||||||||||||| ||||  |||||  | |||||||||
gtaaagattcatcaagttttcacattttcgaaaatattt-tgtagtc--tttgttactcgttgttagctgctattatcatgctaatcgtaaccaaattttgtttttttatagGAGAGCTCTAATGGTGAAGAGAGCAGTGAGAGTGAAACCACAATTGAATTCACACAAGAGATTTGCTAATGCATTCCCAAAGTATTGTGAGCTTGTTGAT

upper sequence: GLYMA20G34750.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv05s0020g04850.t01 (Vitis vinifera), 3'ss of exon 7
------------------------------------------------------------------gtatgtatgc--ttgtggaatcatccatgttactagtctgggaattggttttgttgatatgagt-atgactgttaacatgacat----tggaattttgacagGAGAGCTATTATGACAGGGAGGGCAGTGAGAGTGAATTCACAACTGAAATCTCACAAAAGATTTGCTAATGCATTTCCAAGATATTGCAAACTTGTTGAT
                                                                   ||  |||||  || |  | |     ||| |||||           | |  |||  | || | | |  ||||  |   | | ||    |  | ||   ||||||||||||| ||||||    | |||||||| ||||| |||||  ||||||| ||||| |||||||| | ||| ||||  ||||| ||| |||||||||||
gtaaaattttgtatgaacttcaacatttttatgttaagaggaacaggattgtctggatgagatacattaaatatgccatttttcagtttgagatgctactaaggcaacttaagctagtgtgcaaatcattcaaaactgacagggtcatatattttatacttgaaacagGAGAGCTATAATGACAAAACGAGCAGTGAGGGTGAACTCACAGTTGAAATCCCACAAGAGATTTGCAAGTGCGTTTCAGAGATACTGCCAACTTGTTGAT
















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|14259440|gb|BG882348.1|BG882348
EST:     CTAGTTGGTGTGGTTTGTGATGGCTATCTTGCTGTTGTTAGAGGCATTAG                         GAGAGCTATTATGACAGGGAGGGCAGTGAGAGTGAATTCACAACTGAAATC
genomic: CTAGTTGGTGTGGTTTGTGATGGCTATCTTGCTGTTGTTAGAGGCATTAGgtatgtatgc ... attttgacagGAGAGCTATTATGACAGGGAGGGCAGTGAGAGTGAATTCACAACTGAAATC
EST: gi|209701615|gb|BW660971.1|BW660971
EST:     ATGGCTATCTTGCTGTTGTTAGAGGCATTAG                         GAGAGCTATTATGACAGGGAGGGCAGTGAGAGTGAATTCACAACTGAAATC
genomic: ATGGCTATCTTGCTGTTGTTAGAGGCATTAGgtatgtatgc ... attttgacagGAGAGCTATTATGACAGGGAGGGCAGTGAGAGTGAATTCACAACTGAAATC
EST: gi|193491125|gb|FK455564.1|FK455564
EST:     CTAGTTGGTGTGGTTTGTGATGGCTATCTTGCTGTTGTTAGAGGCGTTAG                         GAGAGCTATTATGACAGGGAGGGCAGTGAGAGTGAATTCACAACTGAAATC
genomic: CTAGTTGGTGTGGTTTGTGATGGCTATCTTGCTGTTGTTAGAGGCATTAGgtatgtatgc ... attttgacagGAGAGCTATTATGACAGGGAGGGCAGTGAGAGTGAATTCACAACTGAAATC
EST: gi|105633917|gb|DW247280.1|DW247280
EST:     CTAGTTGGTGTGGTTTGTGATGGCTATCTTGCTGTTGTTAGAGGCATTAG                         GAGAGCTGTTATGACAGGGAGGGCAGTGAGAGTGAATTCACAACTGAAATC
genomic: CTAGTTGGTGTGGTTTGTGATGGCTATCTTGCTGTTGTTAGAGGCATTAGgtatgtatgc ... attttgacagGAGAGCTATTATGACAGGGAGGGCAGTGAGAGTGAATTCACAACTGAAATC
EST: gi|15337676|gb|BI498332.1|BI498332
EST:     CTAGTTGGTGTGGTTTGTGATGGCTATCTTGCTGTTGTTAGAGGCATTAG                         GAGAGCTATTATGACAGGGAGGGCAGTGAGAGTGAATTCACAACTGAAATC
genomic: CTAGTTGGTGTGGTTTGTGATGGCTATCTTGCTGTTGTTAGAGGCATTAGgtatgtatgc ... attttgacagGAGAGCTATTATGACAGGGAGGGCAGTGAGAGTGAATTCACAACTGAAATC
EST: gi|209708386|gb|BW665359.1|BW665359
EST:     GTTAGAGGCATTAG                         GAGAGCTATTATGACAGGGAGGGCAGTGAGAGTGAATTCACAACTGAAATC
genomic: GTTAGAGGCATTAGgtatgtatgc ... attttgacagGAGAGCTATTATGACAGGGAGGGCAGTGAGAGTGAATTCACAACTGAAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattggttttgttgatatgagtatgactgttaacatgacattggaattttgacagGAGAGCTATTATGACAGGGAGGGCAGTGAGAGTGAATTCACAACTGAAATCTCACAAAAGATTTGCTAATGCATTTCCAAGATATTGCAAACTTGTTGAT
                           tgttaac  putative branch site (score: 2)
                                            aattttga  TA-rich tract