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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttctctgattttatggttatgagcttgctaatgcccttctattatccagtaatgttgctgttttacaatgcatgtggcagttggttgattacatggtttttatttttcagGAACGTGCGGCTGGTGCATTGGCTAATTTGGCAGCTGATGACAAGTGTAGTACAGAGGTTGCACTAGCAGGAGGTGTACATGCTCTAGTGATGCTTGCTC

Basic information

species Glycine max
transcript GLYMA09G37720.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G37720.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 4
---------------------gtaagtttctctgattttatgg----ttatgagcttgctaatgccctt-ctattatccag-taatgttgctgttttacaatgcatgtggcagttggttgattacatggtttttatttttcagGAACGTGCGGCTGGTGCATTGGCTAATTTGGCAGCTGATGACAAGTGTAGTACAGAGGTTGCACTAGCAGGAGGTGTACATGCTCTAGTGATGCTTGCTC
                      | | ||||| |    |||||     ||||||     |   |    || ||   ||  || ||  ||| ||||||    ||  || |    || ||||| || | || ||     ||||||||||||||| ||||||||| |||| |||||||| ||||||||||| ||||| |  ||||||||||||||||| |||||||||||| | || ||||||||||
gtatgggttctattattctgcattattttctgtctacttatgaagccttatgaatcatcatttttttttgcttgcatgaagctagagtttctgtttggtgata-atataattgt-ggttggtt-cttgtttgcatgttttcagGAACGTGCAGCTGGTGCACTGGCAAATTTGGCGGCTGATGACAAATGTAGCATGGAGGTTGCACTAGCAGGTGGTGTACATGCTTTGGTTATGCTTGCTC
















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|209716858|gb|BW679610.1|BW679610
EST:     CTTTAGTGGATCTTATATTCAAGTGGTCCTCTAGTGGAGATGGAGTTTTA                         GAACGTGCGGCTGGTGCATTGGCTAATTTGGCAGCTGATGACAAGTGTAGT
genomic: CTTTAGTGGATCTTATATTCAAGTGGTCCTCTAGTGGAGATGGAGTTTTAgtaagtttct ... tatttttcagGAACGTGCGGCTGGTGCATTGGCTAATTTGGCAGCTGATGACAAGTGTAGT
EST: gi|7041810|gb|AW471704.1|AW471704
EST:     CTTTAGTGGATCTTATATTCAAGTGGTCCTCTAGTGGAGATGGAGTTTTA                         GAACGTGCGGCTGGTGCATTGGCTAATTTGGCAGCTGATGACAAGTGTAGT
genomic: CTTTAGTGGATCTTATATTCAAGTGGTCCTCTAGTGGAGATGGAGTTTTAgtaagtttct ... tatttttcagGAACGTGCGGCTGGTGCATTGGCTAATTTGGCAGCTGATGACAAGTGTAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctgttttacaatgcatgtggcagttggttgattacatggtttttatttttcagGAACGTGCGGCTGGTGCATTGGCTAATTTGGCAGCTGATGACAAGTGTAGTACAGAGGTTGCACTAGCAGGAGGTGTACATGCTCTAGTGATGCTTGCTC
                           ggttgat  putative branch site (score: 5)
                                         tttttatttttc  putative PPT
                                     atggtttttattttt  TA-rich tract