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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaagcataggctcttgtcagctacaaatattcaattcagcacagtttgttaagttttaatcctctcacaaaatctgcaattttttctgttcatgttcagCTATCACAGTTGGAACGCAAGGTACAATTAGCGAGACAACAGGAGTCAGTTTATTGGCATCTAGCTTCTCATGGTGTTCCCAAAAGTCTACATTGTCTAT

Basic information

species Glycine max
transcript GLYMA08G42280.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G42280.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0142g00340.t01 (Vitis vinifera), 3'ss of exon 3
-----tgaagcataggct--cttgtcagctacaaatattcaattcagcacagtttgttaagttttaatcctctcacaaaatctgcaattttttctgttcatgttcagCTATCACAGTTGGAACGCAAGGTACAATTAGCGAGACAACAGGAGTCAGTTTATTGGCATCTAGCTTCTCATGGTGTTCCCAAAAGTCTACATTGTCTAT
     | |  |||  | |  ||| | |   | | |  ||   ||  ||  ||  |   ||  |  || |  |      ||||  | |||| || | |  || | ||| | |   || |||| || ||||| |||| ||| ||||| |  |||||| |||| |||||| ||||||| |||||||||||||||||| ||||||| || |
tctattcagccattagtttgctttttaagcaaagaacttttgttgtgc-tagcattacaatgtcaaagcacc------aatcctccatttattttctgaatatgcagATTTTGAAGATGGAGCGTAAGGTTCAATCAGCCAGACAGCGTGAGTCAATTTACTGGCATTTAGCTTCGCATGGTGTTCCCAAAAGTGTACATTGCCTTT
















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|7686757|gb|AW757405.1|AW757405
EST:     TGACCTCAAAACAAGACCTTAAGGCTTTTGCTTTCAAGACCAAAGCCATG                         CTATCACAGTTGGAACGCAAGGTACAATTAGCGAGACAACAGGAGTCAGTT
genomic: TGACCTCAAAACAAGACCTTAAGGCTTTTGCTTTCAAGACCAAAGCCATGgtatataaat ... tcatgttcagCTATCACAGTTGGAACGCAAGGTACAATTAGCGAGACAACAGGAGTCAGTT
EST: gi|21887404|gb|BQ740617.1|BQ740617
EST:     TGACCTCAAAACAAGACCTTAAGGCTTTTGCTTTCAAGACCAAAGCCATG                         CTATCACAGTTGGAACGCAAGGTACAATTAGCGAGACAACAGGAGTCAGTT
genomic: TGACCTCAAAACAAGACCTTAAGGCTTTTGCTTTCAAGACCAAAGCCATGgtatataaat ... tcatgttcagCTATCACAGTTGGAACGCAAGGTACAATTAGCGAGACAACAGGAGTCAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgttaagttttaatcctctcacaaaatctgcaattttttctgttcatgttcagCTATCACAGTTGGAACGCAAGGTACAATTAGCGAGACAACAGGAGTCAGTTTATTGGCATCTAGCTTCTCATGGTGTTCCCAAAAGTCTACATTGTCTAT
                 ctctcac  putative branch site (score: 3)
                                   ttttttctgttcat  putative PPT
     taagttttaat  TA-rich tract