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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcagttcagtgttacagttttcaataataattttgttctaaaatatcaaattatttattttgattaaatcattttataactaactgcttctttccagtagGTGGTCCTTGACAAAGAGAAACAGGTTGCCACAGTGGACAGAGAGGTTGACGATGGTATTGAAACCGTGTGTCTGAACTTACCAGCAGTAATAACGTAAG

Basic information

species Glycine max
transcript GLYMA20G34520.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G34520.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0049g00470.t01 (Vitis vinifera), 3'ss of exon 3
-----gcagttcagtgtt-acagttttcaataataattttgttctaaaatatcaaattatttattttgattaaatcattttataactaactgcttctttccagtagGTGGTCCTTGACAAAGAGAAACAGGTTGCCACAGTGGACAGAGAGGTTGACGATGGTATTGAAACCGTGTGTCTGAACTTACCAGCAGTAATAACGTAAG
     ||| ||  ||||| | ||         || || |  ||  ||  |||    || |||   || | ||| |  ||  |   ||  ||||| ||||| ||||||| || || ||||| |||||| |||| || |||||||| |||||||| || | |||| |||||||  | ||| || |||||||||||||||| ||     
tattggcaatt-ggtgttgatagaacatttagatgatctctttaaaagttattc--ttctttgcctttaataa-ttgttcaac--ctggctgctgctttctagtagGTTGTGCTGGACAAGGAGAAAGAGGTGGCAACAGTGGAGAGAGAGGTGGATGGTGGTCTTGAAACTTTATGTTTGGACTTACCAGCAGTAATCAC-----
















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|14259523|gb|BG882431.1|BG882431
EST:     AGATGATAGCAGGACTCCTCAACTGGCCTTAAGGGACTTTTGCTTCTAAG                         GTGGTCCTTGACAAAGAGAAACAGGTTGCCACAGTGGACAGAGAGGTTGAC
genomic: AGATGATAGCAGGACTCCTCAACTGGCCTCAAGGGACTTTTGCTTCTAAGgttagtccat ... tttccagtagGTGGTCCTTGACAAAGAGAAACAGGTTGCCACAGTGGACAGAGAGGTTGAC
EST: gi|17401818|gb|BM178600.1|BM178600
EST:     AGATGATAGCAGGACTCCTCAACTGGCCTCAAGGGACTTTTGCTTCTAAG                         T
genomic: AGATGATAGCAGGACTCCTCAACTGGCCTCAAGGGACTTTTGCTTCTAAGgttagtccat ... tttccagtag-
EST: gi|17401818|gb|BM178600.1|BM178600
EST:     AGATGATAGCAGGACTCCTCAACTGGCCTCAAGGGACTTTTGCTTCTAAG                         T
genomic: AGATGATAGCAGGACTCCTCAACTGGCCTCAAGGGACTTTTGCTTCTAAGgttagtccat ... tttccagtag-
EST: gi|17401818|gb|BM178600.1|BM178600
EST:     AGATGATAGCAGGACTCCTCAACTGGCCTCAAGGGACTTTTGCTTCTAAG                         T
genomic: AGATGATAGCAGGACTCCTCAACTGGCCTCAAGGGACTTTTGCTTCTAAGgttagtccat ... tttccagtag-


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaaattatttattttgattaaatcattttataactaactgcttctttccagtagGTGGTCCTTGACAAAGAGAAACAGGTTGCCACAGTGGACAGAGAGGTTGACGATGGTATTGAAACCGTGTGTCTGAACTTACCAGCAGTAATAACGTAAG
                                aactaac  putative branch site (score: 1)
                                      ctgcttctttcc  CT-rich tract
     ttatttattttgatta  TA-rich tract