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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagtatgatttatgtaaccgacctcatcacctagtgtgataaggttttgttgtcgtcatcatattactttggtaaaattttgtactgtttgcatatgcagGTTGTGAGGTTTATAACTTGGGAACAGGAAAGGGAACATCAGTTTTGGAGATGGTAAACGCTTTTGAACAGGCCTCTGGAAAGGTAACAGACTTATAGCT

Basic information

species Glycine max
transcript GLYMA08G02690.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G02690.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os09g15420.1 (Oryza sativa), 3'ss of exon 6
aagtatgatttatgtaaccgacctcatcacctagtgtgataaggttttgttgtcgtcatcatattactttggtaaaattttgtactg-------tttgcatatgcagGTTGTGAGGTTTATAACTTGGGAACAGGAAAGGGAACATCAGTTTTGGAGATGGTAAACGCTTTTGAACAGGCCTCTGGAAAGGTAACAGACTTATAGCT
       | |||    || |     | | |  |  ||| |      |       ||||   | ||    || ||||  ||| | ||        |||  |  |||||| ||| | |  || ||| | ||||||||||||||||||||||| ||||| || || || || |||||  | |  |||||||||                 
-------aattacagcactgtttagaactcaaatagtgttggatgctcagaactgtcactttgttttgatgttaaatcttttttctaaaatttatttctacttgcagGATGTCAAGCATACAACCTTGGAACAGGAAAGGGAACATCAGTGTTGGAAATAGTTAATGCATTTGAGAAAGTTTCTGGAAAG-----------------

upper sequence: GLYMA08G02690.2 (Glycine max), 3'ss of exon 6
lower sequence: AT1G64440.1 (Arabidopsis thaliana), 3'ss of exon 6
aagtatgatttatgtaaccgacc--tcatcacct-agtgtgataaggttttgttgtcgtca--tcatattactttggtaaaat-tttgtactgtttgcatatgc-agGTTGTGAGGTTTATAACTTGGGAACAGGAAAGGGAACATCAGTTTTGGAGATGGTAAACGCTTTTGAACAGGCCTCTGGAAAGGTAACAGACTTATAGCT
  ||||| |||   |   |      | |  |||| | |||    |   |   |   ||     | |||  |    | | || | | ||   ||  ||  | ||| |||||||||||| || ||| ||||||| ||||| |||||| |||| |||||||||||  | || |||||  | || ||||||| |                 
--gtatgcttttcttcttcttttcataagtacctcattgtctcgacaatacatatccgcttatttatacaaacaagctcaactgtctgatttggctgt-tgtgctagGTTGTGAGGTATACAACCTGGGAACCGGAAAAGGAACAACAGTGTTGGAGATGGTTGATGCATTTGAGAAAGCTTCTGGAATG-----------------

upper sequence: GLYMA08G02690.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 6
-aagtatgatttatgtaaccgacctcatcacc--tagtgtgataaggttttgttgtcgtcatcatattactttggtaaaattttgtactgtttgcatatgcagGTTGTGAGGTTTATAACTTGGGAACAGGAAAGGGAACATCAGTTTTGGAGATGGTAAACGCTTTTGAACAGGCCTCTGGAAAGGTAACAGACTTATAGCT
  |   | | ||    ||| | | | |   ||   | ||| ||||     |   ||       |    |  |||  |  |||   |  | |   ||   ||||| ||||| || || ||||||||||| || || ||||| |||||||||||||||||    || |||||  |||| |||||||||                 
agaacttaagtttcagaacagtcttaaaggccaacactgtcataaatcacttgagtaaatgggaaggaaacttgtcagtattgatttttatgaaca---gcagGGTGTGAAGTGTACAACTTGGGAACTGGGAAAGGAACTTCAGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAG-----------------

upper sequence: GLYMA08G02690.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv02s0025g01580.t01 (Vitis vinifera), 3'ss of exon 6
---aagtatgatttatgtaaccgacctcatcacctagtgtgataaggttttgttgtcgtcatcatattactttggtaaaattttgtactgtttgcatatgcagGTTGTGAGGTTTATAACTTGGGAACAGGAAAGGGAACATCAGTTTTGGAGATGGTAAACGCTTTTGAACAGGCCTCTGGAAAGGTAACAGACTTATAGCT
    || |  ||  | ||||      ||  ||   | | | ||  | |    |    |  |  |  ||       |  | |||  |    | |  |  |||||| ||||| || || ||||||||||||||||| |||||||| ||||||||||||||    || |||||  |||| |||||||||                 
ctcgagca-aatggaagtaaaacttgtcgacattgattttcatttgatacc-taactgctaaaac-ttgtaaacattgattttcatttgatatctaactgcagGCTGTGAAGTGTACAACTTGGGAACAGGAAAAGGAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAG-----------------

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|19346469|gb|BM891349.1|BM891349
EST:     GCGTTGCGTAAACTGGATGATCCTAAAATAG                         GTTGTGAGGTTTATAACTTGGGAACAGGAAAGGGAACATCAGTTTTGGAGA
genomic: GCGTTGCGTAAACTGGATGATCCTAAAATAGgtatttattc ... gcatatgcagGTTGTGAGGTTTATAACTTGGGAACAGGAAAGGGAACATCAGTTTTGGAGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgttgtcgtcatcatattactttggtaaaattttgtactgtttgcatatgcagGTTGTGAGGTTTATAACTTGGGAACAGGAAAGGGAACATCAGTTTTGGAGATGGTAAACGCTTTTGAACAGGCCTCTGGAAAGGTAACAGACTTATAGCT
               atattactttggtaaa  TA-rich tract