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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatcaaaaggatatttaatatctattctgttttggtcagtatatgtacttcaaccaaggtgtatgtatatatcaatgatacttatagactaagcttacttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAAATGCCTGGGCTTATAACTGATTTTCTGATTTCTCTTGATGATCGGTTTC

Basic information

species Glycine max
transcript GLYMA18G00590.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G00590.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g68770.1 (Oryza sativa), 3'ss of exon 5
gtatatcaa-aaggatat-ttaatatctattctgttttggtcagtatatgtacttcaaccaaggtgtatgtatatatcaatgatacttata--gactaagcttacttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAAATGCCTGGGCTTATAACTGATTTTCTGATTTCTCTTGATGATCGGTTTC
|| | || | ||    ||   ||| |   | || ||||  |   || |      |    | |  | | | ||  | |  |   | |||||     |    | |    |  |||||||| |||||  | ||||||||||||||||  ||||||||||| ||||||||||| || || |||||||||||| | || ||||| |||||||| | ||
gtttgtccataactccatgccaatgttcttgctattttcttgtataaagccctatttgtccaatt-tgtttagttgtttactctccttatgcttgcatgacatgacatgacagGTTGCTATATCTATAAAACCATTGAAAGTGCGCAACTGGATTCTGCCTGAAATGCCAGGACTGATAACTGATTTTGTTATCTCTCTGGATGATCGCTATC

upper sequence: GLYMA18G00590.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G103812_T02 (Zea mays), 3'ss of exon 5
gtatatcaaaaggatatttaatatctattctgttttggtcagtatatgtacttcaaccaaggtgtatgtatatatcaatgatacttatagac-taagcttacttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAAATGCCTGGGCTTATAACTGATTTTCTGATTTCTCTTGATGATCGGTTTC
                       | | |||    |   | |  |  | |    ||   || | |  || || |  |||   | |||| |  | ||    |    ||||||||||| || || ||||||||| |||| || |  ||||||||||| || |||||||| ||  | |||||||||||  | || ||||||||||| || | ||
----------------------gtttgttcatgctacatgataagttctttcccacttaatgggcttg-attttccaact-tgcttacattcctattgctgtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAAATGCCAGGATTGATAACTGATTTCGTCATCTCTCTTGATGACCGTTATC

upper sequence: GLYMA18G00590.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv05s0029g00240.t01 (Vitis vinifera), 3'ss of exon 5
---------------gtatatcaaaaggatatttaatatctattctgttttggtcagtatatgtacttcaaccaaggtgtatgtatatatcaatgatacttatagactaagcttacttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAAATGCCTGGGCTTATAACTGATTTTCTGATTTCTCTTGATGATCGGTTTC
               || | ||   |     |||  |    |   ||  ||    | | |||     || |  ||||  |    ||  |  |   ||| | |    ||||  |||||| || ||||||| |||||||| |||||| |||| ||||||||||||||||||||||| |||||    |||||||||||||||||||| ||||| ||||| || | ||
gtatgcggataatatgtgtttcttcaattcctttgtttgaaaccttgcattttgaattgtattagtctctattaaggcatgacaatccacaatatataatcactccctaa-tttacttatgaagGTTGCAATATCAGTAAAACCACTGAAGGTGCAAAACTGGATTCTTCCTGACATGCCGTCTCTTATAACTGATTTTCTGATCTCTCTCGATGACCGTTATC

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|192321462|gb|FK011748.1|FK011748
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|308098167|gb|HO761338.1|HO761338
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|6454871|gb|AW185620.1|AW185620
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|208059645|gb|GD860349.1|GD860349
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|10847443|gb|BF070130.1|BF070130
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGGAAAGTGCAAAACTGGATTCTTCCTGA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATT-GAAAGTGCAAAACTGGATTCTTCCTGA
EST: gi|208061837|gb|GD856289.1|GD856289
EST:     GTAACATGATACGATTTTTTAAGACCTAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|254347237|gb|GR853486.1|GR853486
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|254328939|gb|GR833311.1|GR833311
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|209724301|gb|BW662914.1|BW662914
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|254318556|gb|GR832724.1|GR832724
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|192321461|gb|FK011747.1|FK011747
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|308098505|gb|HO760246.1|HO760246
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|208182658|gb|GD980484.1|GD980484
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|254320364|gb|GR826381.1|GR826381
EST:     TGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: TGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|254322236|gb|GR837650.1|GR837650
EST:     GTAACATGATACGATTTTTT-AGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|207810533|gb|GD781642.1|GD781642
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
EST: gi|19269932|gb|BM886188.1|BM886188
EST:     GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAG                         GTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA
genomic: GTAACATGATACGATTTTTTAAGACCCAAGATGAATCATGGAGCCATGAGgtatatcaaa ... acttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaccaaggtgtatgtatatatcaatgatacttatagactaagcttacttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAAATGCCTGGGCTTATAACTGATTTTCTGATTTCTCTTGATGATCGGTTTC
                                        agcttac  putative branch site (score: 3)
                                          cttactttt  CT-rich tract
              tatatatcaatgatac  TA-rich tract