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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaatctgaattattaagcattcattaagcaatattttctgtgcatgccattaattttgagtcttcacaacagAGTAATATGCAAAAGCTTAGGGAGGGAGCCCAAATGCAAGTTCTGGAGACTGATCATATTATTATCTGTGGGATGAATAGTCATCTTCCCTTCATATTAA

Basic information

species Glycine max
transcript GLYMA20G35310.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G35310.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv05s0020g04630.t01 (Vitis vinifera), 3'ss of exon 7
gtaaaatct-gaattattaagcattcattaagcaatattt-tctgtgcatgccattaattttga--gtcttcacaacagAGTAATATGCAAAAGCTTAGGGAGGGAGCCCAAATGCAAGTTCTGGAGACTGATCATATTATTATCTGTGGGATGAATAGTCATCTTCCCTTCATATTAA
||||  ||| |||     |||| || | |||    |||   | ||| |||     |  || |||   || |    ||||| |||||||||||| ||||| || ||||| || ||||||||| ||||| ||||||||||  |||| ||||| || |||||||||||  |||||||| | |
gtaagctcttgaaaagagaagcttttactaaagtttataggtatgttcatttacctccttatgaccatcatttggacagAATAATATGCAAAAACTTAGAGAAGGAGCACAGATGCAAGTTATGGAGGCTGATCATATCGTTATTTGTGGAATCAATAGTCATCTGACCTTCATACTGA
















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|193693913|gb|FK629085.1|FK629085
EST:     TTTTACTCTCGACTTCTAAGTACGATGACTGAACAATTTAGG                         AGTAATATGCAAAAGCTTAGGGAGGGAGCCCAAATGCAAGTTCTGGAGACT
genomic: TTTTACTCTCGACTTCTAAGTACGATGACTGAACAATTTAGGgtaaaatctg ... ttcacaacagAGTAATATGCAAAAGCTTAGGGAGGGAGCCCAAATGCAAGTTCTGGAGACT
EST: gi|193600921|gb|FK551200.1|FK551200
EST:     TTTTACTCTCGACTTCTAAGTACGATGACTGAACAATTTAGG                         AGTAATATGCAAAAGCTTAGGGAGGGAGCCCAAATGCAAGTTCTGGAGACT
genomic: TTTTACTCTCGACTTCTAAGTACGATGACTGAACAATTTAGGgtaaaatctg ... ttcacaacagAGTAATATGCAAAAGCTTAGGGAGGGAGCCCAAATGCAAGTTCTGGAGACT
EST: gi|193687817|gb|FK633060.1|FK633060
EST:     TTTTACTCTCGACTTTCTTAAGTACGATGACTGAACAATTTAGG                         AGTAATATGCAAAAGCTTAGGGAGGGAGCCCAAATGCAAGTTCTGGAGACT
genomic: TTTTACTCTCGAC-TTC-TAAGTACGATGACTGAACAATTTAGGgtaaaatctg ... ttcacaacagAGTAATATGCAAAAGCTTAGGGAGGGAGCCCAAATGCAAGTTCTGGAGACT
EST: gi|21601098|gb|BQ611429.1|BQ611429
EST:     GTATATTGTTTTACTCTCGACTTCTAAGTACGATGTCTTAATAATTTAGG                         AGTAATATGCAAAAGCTTAGGGAGGGAGTCCAAATGCAAGTTCTGGAGACT
genomic: GTATATTGTTTTACTCTCGACTTCTAAGTACGATGACTGAACAATTTAGGgtaaaatctg ... ttcacaacagAGTAATATGCAAAAGCTTAGGGAGGGAGCCCAAATGCAAGTTCTGGAGACT
EST: gi|193465919|gb|FK433832.1|FK433832
EST:     TTTTACTCTCGACTTCTAAGTACGATGACTGAACAATTTAGG                         AGTAATATGCAAAAGCTTAGGGAGGGAGCCCAAATGCAAGTTCTGGAGACT
genomic: TTTTACTCTCGACTTCTAAGTACGATGACTGAACAATTTAGGgtaaaatctg ... ttcacaacagAGTAATATGCAAAAGCTTAGGGAGGGAGCCCAAATGCAAGTTCTGGAGACT
EST: gi|193462606|gb|FK426363.1|FK426363
EST:     TTTTACTCTCGACTTCTAAGTACGATGACTGAACAATTTAGG                         T
genomic: TTTTACTCTCGACTTCTAAGTACGATGACTGAACAATTTAGGgtaaaatctg ... ttcacaacag-
EST: gi|193462606|gb|FK426363.1|FK426363
EST:     TTTTACTCTCGACTTCTAAGTACGATGACTGAACAATTTAGG                         T
genomic: TTTTACTCTCGACTTCTAAGTACGATGACTGAACAATTTAGGgtaaaatctg ... ttcacaacag-


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattcattaagcaatattttctgtgcatgccattaattttgagtcttcacaacagAGTAATATGCAAAAGCTTAGGGAGGGAGCCCAAATGCAAGTTCTGGAGACTGATCATATTATTATCTGTGGGATGAATAGTCATCTTCCCTTCATATTAA
                              cattaat  putative branch site (score: 3)
                                           tcttcac  putative PPT
     attaagcaatatttt  TA-rich tract