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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactaaggtttggtccatttagaatttctcttttctctacgaatgtggttgtgatgatgtgacttgtgctgtggttagGTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG

Basic information

species Glycine max
transcript GLYMA15G40110.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G40110.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os02g01280.1 (Oryza sativa), 3'ss of exon 12
------gtactaaggtttggtc-----catttagaatttctcttttctctacgaatgtggttgtgatgatgtgacttgtgctgtggttagGTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG
         || |  |||| ||      |    |||| |    ||   |  |   ||||      ||  |   || |||    |  | ||||  |  |||  || ||    || ||||| || ||||| || || ||||||||||| ||||||||| ||||||| || |||||||| || |||
gtttgtactctgacatttgttcttaagtacgatgaatatgcaattctgcagctcgtgtgtaacgaatttttgaacatgtatgatt-tcagGTCCTTGCCAATGATAACTTCAGGTATGGTTACAATGCCGCTACAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAG

upper sequence: GLYMA15G40110.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv06s0004g00240.t01 (Vitis vinifera), 3'ss of exon 12
gtactaaggtttggtccatttagaatttctcttttctctacga--atgtggttgtgatgatgtgacttgtgctgtggttagGTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG
|||  |    |  ||          |   |  | ||| |   |  ||||   |||| |||    |   | ||| |  | ||||  | ||||| |||||||||| |||||| |  |||||||| || ||||||||||||||| | ||| ||||||| || ||||| || || |||
gtataatcaatgagtttccaggaggtccatgatctctgtttcatgatgtatatgtgttgaccaaatgggagct-ttttcagGTGCTCTCCAGTGACAATCCAAAATATGGGTTCAATGCTGCAACAGGAAAATATGAAGATCTAATGGCTGCTGGAATAATTGACCCTACTAAG
















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|16278868|gb|BI943136.1|BI943136
EST:     A-TTAATTGCCCAAAACGCTGGTGTCAATGGTAGTGGTGTCAGTGAGAAG                         GTATTGTCCAGCGAC
genomic: AATTAATTGCCAAAAACGCTGGTGTCAATGGTAGTGTTGTCAGTGAGAAGgtactaaggt ... ctgtggttagGTATTGTCCAGCGAC
EST: gi|16278211|gb|BI942785.1|BI942785
EST:     AATTAATTGCCAAAAACGCTGGTGTCAATGGTAGTGTTGTCAGTGAGAAA                         GTATTGTTCAGCGACAATCCAAGATATGGATATAATGCTGCC
genomic: AATTAATTGCCAAAAACGCTGGTGTCAATGGTAGTGTTGTCAGTGAGAAGgtactaaggt ... ctgtggttagGTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCC
EST: gi|16995951|gb|BM085323.1|BM085323
EST:     AATTAATTGCCAAAAACGCTGGTGTCAATGGTAGTGTTGTCAGTGAGAAG                         GTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAA
genomic: AATTAATTGCCAAAAACGCTGGTGTCAATGGTAGTGTTGTCAGTGAGAAGgtactaaggt ... ctgtggttagGTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAA
EST: gi|7234102|gb|AW569442.1|AW569442
EST:     CAATGGTAGTGTTGTCAGTGAGAAG                         GTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAA
genomic: CAATGGTAGTGTTGTCAGTGAGAAGgtactaaggt ... ctgtggttagGTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAA
EST: gi|31475719|gb|CD417747.1|CD417747
EST:     AATTAATTGCCAAAAACGCTGGTGTCAATGGTAGTGTTGTCAGTGAGAAG                         GTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAA
genomic: AATTAATTGCCAAAAACGCTGGTGTCAATGGTAGTGTTGTCAGTGAGAAGgtactaaggt ... ctgtggttagGTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAA
EST: gi|8402447|gb|BE058081.1|BE058081
EST:     CAATGGTAGTGTTGTCAGTGAGAAG                         GTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAA
genomic: CAATGGTAGTGTTGTCAGTGAGAAGgtactaaggt ... ctgtggttagGTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAA
EST: gi|208148111|gb|GD949727.1|GD949727
EST:     AATTAATTGCCAAAAACGCTGGTGTCAATGGTAGTGTTGTCAGTGAGAAG                         GTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAA
genomic: AATTAATTGCCAAAAACGCTGGTGTCAATGGTAGTGTTGTCAGTGAGAAGgtactaaggt ... ctgtggttagGTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAA
EST: gi|208199713|gb|GD999954.1|GD999954
EST:     AATTGCC-AAAACGCTGGTGTCAATGGTAGTGTTGTCAGTGAGAAG                         GTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAA
genomic: AATTGCCAAAAACGCTGGTGTCAATGGTAGTGTTGTCAGTGAGAAGgtactaaggt ... ctgtggttagGTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAA
EST: gi|298170123|gb|HO018747.1|HO018747
EST:     AATTAATTGCCAAAAACGCTGGTGTCAATGGTAGTGTTGTCAGTGAGAAG                         GTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAA
genomic: AATTAATTGCCAAAAACGCTGGTGTCAATGGTAGTGTTGTCAGTGAGAAGgtactaaggt ... ctgtggttagGTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAA
EST: gi|31309826|gb|CD395029.1|CD395029
EST:     AATTAATTGCCAAAAACGCTGGTGTCAATGGTAGTGTTGTCAGTGAGAAG                         GTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAA
genomic: AATTAATTGCCAAAAACGCTGGTGTCAATGGTAGTGTTGTCAGTGAGAAGgtactaaggt ... ctgtggttagGTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAA
EST: gi|6951494|gb|AW423562.1|AW423562
EST:     CAATGGTAGTGTTGTCAGTGAGAAG                         GTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAA
genomic: CAATGGTAGTGTTGTCAGTGAGAAGgtactaaggt ... ctgtggttagGTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactaaggtttggtccatttagaatttctcttttctctacgaatgtggttgtgatgatgtgacttgtgctgtggttagGTATTGTCCAGCGACAATCCAAGATATGGATATAATGCTGCCACCGGAAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA