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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

tgtaaggctaactggaaatttctgaataagtgtaacacatggatcatacctaaagcatgcttgacctaattttacaGGAGTGCAAAGGCGGGTTTTTATGCTTCTAGATACAAGAGATTTGGCAACCTGTGCTATGTCATTGGTGCATTGCAAGCCTTCATTGGGCATCAAAACCA

Basic information

species Glycine max
transcript GLYMA18G47330.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G47330.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os03g03400.2 (Oryza sativa), 3'ss of exon 8
tgtaaggctaactggaaatttctgaataagtgtaacaca-tggatcatacctaaagcatg--cttgacctaattttacaGGAGTGCAAAGGCGGGTTTTTATGCTTCTAGATACAAGAGATTTGGCAACCTGTGCTATGTCATTGGTGCATTGCAAGCCTTCATTGGGCATCAAAACCA-
 ||||| | | |  |     | |||    ||| ||  || |||||  |    |||| |     |||  ||     | ||||||||| |||||||||| || | ||||||  |||||||||||||||||| | ||||||||  |||| ||  |   ||||||    || |||   || |  
-gtaagtcaagcatggctcatttgacct-gtgaaattcaatggatggtttgaaaaggaaaaaattgctctgcacctgcagGAGTGCTAAGGCGGGTTATTTTTCTTCTATGTACAAGAGATTTGGCAACTTATGCTATGTTTTTGGAGCGCTCAGAGCCTTTTGGGGACATAGTAATCGA

upper sequence: GLYMA18G47330.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv15s0046g01770.t01 (Vitis vinifera), 3'ss of exon 8
----------------tgtaaggctaact------ggaaatttctgaataagtgt-------aacacatg--gatcatacctaaagcatgcttgacct------aattttacaGGAGTGCAAAGGCGGGTTTTTATGCTTCTAGATACAAGAGATTTGGCAACCTGTGCTATGTCATTGGTGCATTGCAAGCCTTCATTGGGCATCAAAACCA-
                ||||||| |||||      |  |||||| |||      |       | || ||   | ||  ||  |   |||  ||   ||      ||||||  |||||||||||||| || | ||| |||||||||||||| |||||||| ||  |||| |||||||||||||||||||||||||| ||||| ||||| ||||| 
gtaaggttaattcatttgtaaggttaacttcctcagagaatttcagaactgacctttgtggaagcatatactggtctgacaaatcccattgttattctctctggaattttttagGAGTGCAAAGGCAGGCTATTACGCTTCTAGATACAAAAGATTTGGAAATTTGTGTTATGTCATTGGTGCATTGCAAGCCTTTATTGGACATCAGAACCAG
















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|298181009|gb|HO022448.1|HO022448
EST:     TGGAGAGAGTTGCGACCATCATTACTTCATAAATGTCACCGACATTCATT                         TGAGTGCAAAGGCGGGTTTTTATGCTTCTAGATACAAGAGATTTGGCAACC
genomic: TGGAGAGAGTTGCGACCATCATTACTTCATAAATGTCGCCGACATTCATTtgtaaggcta ... taattttacaGGAGTGCAAAGGCGGGTTTTTATGCTTCTAGATACAAGAGATTTGGCAACC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgaataagtgtaacacatggatcatacctaaagcatgcttgacctaattttacaGGAGTGCAAAGGCGGGTTTTTATGCTTCTAGATACAAGAGATTTGGCAACCTGTGCTATGTCATTGGTGCATTGCAAGCCTTCATTGGGCATCAAAACCA
                                          acctaat  putative branch site (score: 3)
                                             taattttaca  TA-rich tract