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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacattttttcttatacttgtttaaagttcaattttaatattcaatgttattctctatgttcttaccttcctccattggttgtagGCAAATGTTGCTAGGTTTGACGGACATGCTGGGCCAGTAACTGCCATATCTTTCTCTGAGAATGGATACTTCCTTGCG

Basic information

species Glycine max
transcript GLYMA20G21330.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G21330.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os10g32880.1 (Oryza sativa), 3'ss of exon 11
gtaaacattttttcttatacttgtttaaagttcaattttaa-tattca---atgt-tattctctatgttctt-----accttcctccattggttgtagGCAAATGTTGCTAGGTTTGACGGACATGCTGGGCCAGTAACTGCCATATCTTTCTCTGAGAATGGATACTTCCTTGCG
        |  | |    |||  || ||  |    ||| |  | ||||   |||| |  |||  |  | | |     ||  || ||  ||   | ||| |||||||||| | |||||| || |||| ||| ||||| ||||| || || |||||||| ||||| ||||||||||||
--gtgtgatactccggcaactcattcaagttcttttttcaggtgttcatgcatgtctgctcttgaaataccttgctaacaatcatcttttttctctagTCAAATGTTGCAAAGTTTGAGGGGCATGTTGGACCAGTGACTGCTATGTCCTTCTCTGAAAATGGTTACTTCCTTGCG

upper sequence: GLYMA20G21330.1 (Glycine max), 3'ss of exon 13
lower sequence: AT2G33340.1 (Arabidopsis thaliana), 3'ss of exon 13
---------gtaaacattttttct-tatacttgtttaaagttcaattttaatattcaatgttattctctatgttcttaccttcctccattggttgtagGCAAATGTTGCTAGGTTTGACGGACATGCTGGGCCAGTAACTGCCATATCTTTCTCTGAGAATGGATACTTCCTTGCG
          |   | |     || |||      ||||| || | |  |  | | || |||| |||  |||  | ||   ||  |   ||| |  ||||||||||| |||| |||||| |||||  |||||  ||| || || |||||||||||||| ||||| |||||||| |||
gtaaaaactatgggcttccaaactatatgacctattaaaatt-attaattgtgtacagtgttcttcattatagttttcatttttttggttgataatagGCAAATGTGGCTAAGTTTGATGGACACACTGGGGAAGTTACAGCTATATCTTTCTCTGAAAATGGTTACTTCCTCGCG

upper sequence: GLYMA20G21330.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv05s0049g01840.t01 (Vitis vinifera), 3'ss of exon 13
gtaa-acattttttcttatacttgtttaaagttcaattttaatattcaatgttattctctatgttcttaccttcctccattggtt-gtagGCAAATGTTGCTAGGTTTGACGGACATGCTGGGCCAGTAACTGCCATATCTTTCTCTGAGAATGGATACTTCCTTGCG
|||| | ||| | ||||  |   ||||||  |    | |||  ||||    |||||| ||   ||||  | ||| |   ||  || | |||||||||| || || |||||||| || | |||| | |||||||| ||||||||||| || ||||| ||||||||||||
gtaataaattatgtcttgcaa--gtttaacctgggttgttagaattct---ttattcacttatttct--ctttcttttgttaatttgcagGCAAATGTGGCAAGATTTGACGGGCACGTTGGGGCTGTAACTGCTATATCTTTCTCAGAAAATGGTTACTTCCTTGCG

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|207779928|gb|GD753949.1|GD753949
EST:     GAACCGGCACCACAGAATCTCTTGTCAAGATTTGGGATGTAAAAAGTCAG                         GCAAATGTTGCTAGGTTTGACGGACATGCTGGGCCAGTAACTGCCATATCT
genomic: GAACCGGCACCACAGAATCTCTTGTCAAGATTTGGGATGTAAAAAGTCAGgtaaacattt ... ttggttgtagGCAAATGTTGCTAGGTTTGACGGACATGCTGGGCCAGTAACTGCCATATCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattttaatattcaatgttattctctatgttcttaccttcctccattggttgtagGCAAATGTTGCTAGGTTTGACGGACATGCTGGGCCAGTAACTGCCATATCTTTCTCTGAGAATGGATACTTCCTTGCG
                             ttcttac  putative branch site (score: 2)
                    ttctctatgttcttac  CT-rich tract
     taatattcaatgttat  TA-rich tract