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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgttcatttgatcttttattattttttttttcatttcttccctctcatattcctttatcttgaaacaaataagcagaaaagtatttggtgttttaagcttctctagtaccttcccttagcaatcatataatagttattttcctttcaagctcatgctacctttgataatgcagCCATGGCTTGCGAACTGGGATATTTGAAGCAAGTAAATTGGTGTTGATAAATATTGCTCCTACACTGCCAGAACTCCAG

Basic information

species Glycine max
transcript GLYMA20G31800.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G31800.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv13s0019g03870.t01 (Vitis vinifera), 3'ss of exon 4
gttgttcatttgatcttttattattttttttttcatttcttccctctcatattcctttatcttgaaacaaataagcagaaaagtatttggtgttttaagcttctctagtaccttcccttagcaatcatataatagttattttcctttcaagctcatgctacctttgat--aatgcagCCATGGCTTGCGAACTGGGATATTTGAAGCAAGTAAATTGGTGTTGATAAATATTGCTCCTACACTGCCAGAACTCCAG
                                                       ||||| |    |   || || || ||||       | | || |   | |  || ||  | |   |     || |                 || |||| |||    |||| ||    | ||||||||||||||||||||| || ||||||||||| ||  | |||||||||||| |||||||||| || |||||  |||||
-------------------------------------------------------tttattt----attgatcagtagcaaagag---aatatattgaagatttaaagaactgtacaccaaggtacacagg---------------tcgagctaatgtgttcttttatttgttacagCCATGGCTTGCGAACTGGAATTTTTGAAGCAAGCAAGCTTGTGTTGATAAATGTTGCTCCTACCCTTCCAGAGATCCAG
















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|15285853|gb|BI469744.1|BI469744
EST:     CGGGGTTTATACAGGGGCTCTATCCCTGCAATTCTTGGACAGTTTTCAAG                         CCATGGCTTGCGAACTGGGATATTTGAAGCAAGTAAATTGGTGTTGATAAA
genomic: CGGGGTTTATACAGGGGCTCTATCCCTGCAATTCTTGGACAGTTTTCAAGgttgttcatt ... gataatgcagCCATGGCTTGCGAACTGGGATATTTGAAGCAAGTAAATTGGTGTTGATAAA
EST: gi|13478155|gb|BG507751.1|BG507751
EST:     CAGGGGCTCTATCCCTGCAATTCTTGGACAGTTTTCAAG                         CCATGGCTTGCGAACTGGGATATTTGAAGCAAGTAAATTGGTGTTGATAAA
genomic: CAGGGGCTCTATCCCTGCAATTCTTGGACAGTTTTCAAGgttgttcatt ... gataatgcagCCATGGCTTGCGAACTGGGATATTTGAAGCAAGTAAATTGGTGTTGATAAA
EST: gi|17519837|gb|BM188879.1|BM188879
EST:     TTGGACAGTTTTCAAG                         CCATGGCTTGCGAACTGGGATATTTGAAGCAAGTAAATTGGTGTTGATAAA
genomic: TTGGACAGTTTTCAAGgttgttcatt ... gataatgcagCCATGGCTTGCGAACTGGGATATTTGAAGCAAGTAAATTGGTGTTGATAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaatcatataatagttattttcctttcaagctcatgctacctttgataatgcagCCATGGCTTGCGAACTGGGATATTTGAAGCAAGTAAATTGGTGTTGATAAATATTGCTCCTACACTGCCAGAACTCCAG
                                         ctttgat  putative branch site (score: 5)
      atataatagttatttt  TA-rich tract