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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtgattgtggatgccttctgtcaatcaactaaaagttcagcacacattaatttagacagatcttctctttatttttaattggtcattttcctgctgtagATTGTTGATGGAAAACTCTCACAGACCTGTTATCTCATGGCACTTGATTCCTGTTACCGGCTTTACTGTGAGAA

Basic information

species Glycine max
transcript GLYMA16G32480.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G32480.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0025g04580.t01 (Vitis vinifera), 3'ss of exon 5
agtgattgtggatgccttctgtcaatcaactaaaag---ttcagcacacattaatttagacagatc--ttctctttatttttaattggtcattttcctgctgtagATTGTTGATGGAAAACTCTCACAGACCTGTTATCTCATGGCACTTGATTCCTGTTACCGGCTTTACTGTGAGAA
      ||  | |   || ||  |  ||  |  | |   ||  |||  | ||  ||   | |   |  || ||  | |||| | ||  | |  ||     |  || |||||||||| || || |||||||| |||||||| |||||||||||||| || ||    ||||  |||   ||
-----gtgctggttttttgtgaaacccatttccatggttttgtgcatgccttgtttcttataccccaattttcagttttttcacttattaaaattatgtttccagGTTGTTGATGGGAAGCTTTCACAGACTTGTTATCTGATGGCACTTGATTCTTGCTATAAACTTTTGTGTTCCAA

upper sequence: GLYMA16G32480.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0036g00810.t01 (Vitis vinifera), 3'ss of exon 4
agtgattgtggatgccttctgtcaatcaactaaa-agttcagcacaca--ttaatttagacagatc--ttctctttatttttaattggtcattttcctgctgtagATTGTTGATGGAAAACTCTCACAGACCTGTTATCTCATGGCACTTGATTCCTGTTACCGGCTTTACTGTGAGAA
      ||  | |   || ||  |  ||  |  |  |||  |  ||    ||  ||   | |   |  || ||  | |||| | ||    |  ||     |  || |||| ||||| || || |||||||| |||||||| |||||||||||||| ||  |    ||||  |||   ||
-----gtgctggttttttgtgaaacccatttccatggttttgtgcatggcttgtttcttataccccaattttcagttttttcacttataaaaattatgtttccagGTTGTCGATGGGAAGCTTTCACAGACTTGTTATCTGATGGCACTTGATTCTTGCAATAAACTTTTGTGTTCCAA
















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|192293854|gb|FG986063.1|FG986063
EST:     TGTCTCATGCATATGATTTTTACAAGCCAAACCTTGCTAGCGAATATCCA                         ATTGTTGATGGAAAACTCTCACAGACCTGTTATCTCATGGCACTTGATTCC
genomic: TGTCTCATGCATATGATTTTTACAAGCCAAACCTTGCTAGCGAATATCCAgtaatgctct ... cctgctgtagATTGTTGATGGAAAACTCTCACAGACCTGTTATCTCATGGCACTTGATTCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattaatttagacagatcttctctttatttttaattggtcattttcctgctgtagATTGTTGATGGAAAACTCTCACAGACCTGTTATCTCATGGCACTTGATTCCTGTTACCGGCTTTACTGTGAGAA
                            ttttaat  putative branch site (score: 3)
                                      tcattttcct  putative PPT
                       tttatttttaattggt  TA-rich tract