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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatggcactttaacaagttacatgtttttctagagaaccatccatctcaaagtttatcttgtgtttgtgtgatagttgaatggaatttgtattataatcatgtcttaacatagattatacttttgcagGAATGCACGGTGAAAACAAGTAAAGGCTCCATGTCTGTGCTTGTTTGTGGGGATCGAGAAAAACCCGCTCTAATAACCTACCCAGACGTGGCTCTCAATT

Basic information

species Glycine max
transcript GLYMA20G36650.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G36650.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0030g01790.t01 (Vitis vinifera), 3'ss of exon 1
-----------------gtaatggcac-tttaacaag-------ttacatgtttttctagagaaccatccatctcaaagtttatcttgtgtttgtgtg---atagttgaatggaatttgta-----ttataatcatgtcttaa--catagattat---acttttgcagGAATGCACGGTGAAAACAAGTAAAGGCTCCATGTCTGTGCTTGTTTGTGGGGATCGAGAAAAACCCGCTCTAATAACCTACCCAGACGTGGCTCTCAATT
                  ||   |||     |||||        | |  | ||||| |         |   | |     || ||   || | ||||||   |||||||  || | |||||      || |  | |||  ||    | | | ||     | | |||||||||||   |||||| ||||| ||||| || || |||||  |||||||||||||||  ||||| || ||| | ||||| |||||||| || ||||||||||
gtgagaaacttgggttgatatcagcatacccaacaaaaaaccattcatttttttttttttgagttttttttttttttttttaatgcagtttatgtgtgtgtatagttgtgtg-agtttgtgggtcgttttgtttatgggtttgttctttggttgatggaatcttgcagGAATGTGTGGTGAAGACAAGCAAAGGTTCAATATCTGTTTTTGTTTGTGGGGATCAGGAAAAGCCTGCTTTGATAACATACCCAGATGTTGCTCTCAATT
















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|192297072|gb|FG992008.1|FG992008
EST:     CAAGCGACTCTGTCTCCATTGACATTGATTTGATTCCTTTAGGAGGAAAG                         GAATGCACGGTGAAAACAAGTAAAGGCTCCATGTCTGTGCTTGTTTGTGGG
genomic: CAAGCGACTCTGTCTCCATTGACATTGATTTGATTCCTTTAGGAGGAAAGgtaatggcac ... acttttgcagGAATGCACGGTGAAAACAAGTAAAGGCTCCATGTCTGTGCTTGTTTGTGGG
EST: gi|18039748|gb|BM308042.1|BM308042
EST:     CAAGCGACTCTGTCTCCATTGACATTGATTTGATTCCTTTAGGAGGAAAG                         GAATGCACGGTGAAAACAAGTAAAGGCTCCATGTCTGTGCTTGTTTGTGGG
genomic: CAAGCGACTCTGTCTCCATTGACATTGATTTGATTCCTTTAGGAGGAAAGgtaatggcac ... acttttgcagGAATGCACGGTGAAAACAAGTAAAGGCTCCATGTCTGTGCTTGTTTGTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttgaatggaatttgtattataatcatgtcttaacatagattatacttttgcagGAATGCACGGTGAAAACAAGTAAAGGCTCCATGTCTGTGCTTGTTTGTGGGGATCGAGAAAAACCCGCTCTAATAACCTACCCAGACGTGGCTCTCAATT
                             tcttaac  putative branch site (score: 2)
                                            tactttt  putative PPT
          aatttgtattataatc  TA-rich tract