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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acaataaatttactacgtttcctttatatctattcaaatgaatgcttttgtgccttatttaattcgaaagttgagttttcattttctttgtatttatcagAATGGAGTGAGGGGCAGGTTACTGAGTACTTGGTTGCAACATTTGGTGACTATTTTGGTGATGTAAAAAT

Basic information

species Glycine max
transcript GLYMA03G03120.1
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G03120.2 (Glycine max), 3'ss of exon 20
lower sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 19
-------acaataaatttactacgtttcctttatatctattcaaatgaatgcttttgtgccttatttaattcgaaagttgagttttcattttctttgtatttatcagAATGGAGTGAGGGGCAGGTTACTGAGTACTTGGTTGCAACATTTGGTGACTATTTTGGTGATGTAAAAAT
       | || |||   |  | | |    ||  || | || |    |   |||   |   || || ||||| ||      |||  |  ||| | |  |||   |||| ||| | || || |||||||| |||||||||||||||||||||||||| ||||||   ||||| || ||
tttttttagaaaaaaagaaaaaagatcgacttgaatttcttta--ctatctcttgaatcattttttaaattctaa--ccaggttcgctgtttgtctacatt---cagAGTGGTGCGAAGGACAGGTTACAGAGTACTTGGTTGCAACATTTGGTGATTATTTTATGGATGTGAAGAT

upper sequence: GLYMA03G03120.2 (Glycine max), 3'ss of exon 20
lower sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 19
------acaataaatttactacgtttcctttatatctattcaaatgaatgcttttgtgccttatttaattcgaaagttgagttttcattttctttgtatttatcagAATGGAGTGAGGGGCAGGTTACTGAGTACTTGGTTGCAACATTTGGTGACTATTTTGGTGATGTAAAAAT
      | |||||| |    |    |||  |  |  |  |  | |  ||   ||    | || ||| | |   ||     |||  |  ||| | | ||||   |||| ||| |||| || |||||||| |||||||||||||||||||| ||||| ||||||   ||||| || ||
aataataaaataaaatggaaaaaaatccacttgaattcctttact--atctcttgaaacattttttgaattctaa-ccaggttccctgtttgtctatatt---cagAGTGGTGTGAAGGACAGGTTACAGAGTACTTGGTTGCAACATTCGGTGATTATTTTACAGATGTGAAGAT
















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|14990484|gb|BI316157.1|BI316157
EST:     ATTTGAAGATCCTGGTGTCCAGGAGTTACTGGTGAAGCTATATCAGAAAG                         AATGGAGTGAGGGGCAGGTTACTGAGTACTTGGTTGCAACATTTGGTGACT
genomic: ATTTGAAGATCCTGGTGTCCAGGAGTTACTGGTGAAGCTATATCAGAAAGgtaaaataat ... tatttatcagAATGGAGTGAGGGGCAGGTTACTGAGTACTTGGTTGCAACATTTGGTGACT
EST: gi|151398921|gb|EV268792.1|EV268792
EST:     GGTGTCCAGGAGTTACTGGTGAAGCTATATCAGAAAG                         AATGGAGTGAGGGGCGGGTTACTGAGTACTTGGTTGCAACATTTGGTGACT
genomic: GGTGTCCAGGAGTTACTGGTGAAGCTATATCAGAAAGgtaaaataat ... tatttatcagAATGGAGTGAGGGGCAGGTTACTGAGTACTTGGTTGCAACATTTGGTGACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgtgccttatttaattcgaaagttgagttttcattttctttgtatttatcagAATGGAGTGAGGGGCAGGTTACTGAGTACTTGGTTGCAACATTTGGTGACTATTTTGGTGATGTAAAAAT
           atttaat  putative branch site (score: 4)
                              ttttcattttctttgt  putative PPT
                              ttttcattttctttgt  TA-rich tract