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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtgtaagtaacaatcttgtgtttatatgttgatcatgataaaatcatttggtggtatcgtgaagatgtgtgctttcaaagagcctaaacattcactttattttcagGGATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGGCCATTCGAGCATATTCCATTGAATAA

Basic information

species Glycine max
transcript GLYMA02G44250.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G44250.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g59440.3 (Oryza sativa), 3'ss of exon 3
gtagtgtaagtaacaatcttgtgtttatatgttgatcatgataaaatcatttggtggtatcgtgaagatgtgtgctttcaaagagcctaaacattcactttattttcagGGATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGGCCATTCGAGCATATTCCATTGAATAA
                    ||   || |  ||  |  || | |      ||||  | |     |  || |    | | | | |   ||  |  |   | |   ||||| ||||| || | ||||||| | ||||| |||||||||||||| || ||||| ||||| |||||  | |  ||
--------------------gtaagtaca-attcctggtgctgag--tgcttggctgca----aacaatcttgaatgtgataaattttacccccttgttct---ttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATTTGAGCACATTCCCCTAAGCAA

upper sequence: GLYMA02G44250.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g59440.2 (Oryza sativa), 3'ss of exon 4
gtagtgtaagtaacaatcttgtgtttatatgttgatcatgataaaatcatttggtggtatcgtgaagatgtgtgctttcaaagagcctaaacattcactttattttcagGGATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGGCCATTCGAGCATATTCCATTGAATAA----------------------------
                    ||   || |  ||  |  || | |      ||||  | |     |  || |    | | | | |   ||  |  |   | |   ||||| ||||| || | ||||||| | ||||| |||||||||||||| || ||||| ||||| |||||  | |  ||                            
--------------------gtaagtaca-attcctggtgctgag--tgcttggctgca----aacaatcttgaatgtgataaattttacccccttgttct---ttcagTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATTTGAGCACATTCCCCTAAGCAAGTAAGTTTGACTGCCTTTGTGATACTAT

upper sequence: GLYMA02G44250.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G815009_T01 (Zea mays), 3'ss of exon 4
gtagtgtaagtaacaatcttgtgtttatatgttgatcatgataaaatcatttggtggtatcgtgaagatgtgtgctttcaaagagcctaaacattcactttat--tttcagGGATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGGCCATTCGAGCATATTCCATTGAATAA----------------------------
     ||||||||  || |    || | ||||| | |||  ||   ||                 ||||  |||||  |||   | | |   |  ||| ||    |||||| ||||| || | ||||||||||||||| || ||||| |||||||| ||||| ||||| |||||  |||  ||                            
-----gtaagtaa--atatcaatttcaaatgtttagcattctattctctcc--------------agattagtgct--caatttgacaatctacccaccttgctctttcagCGATGTTTCAAGCAATGATTTATGTGGGACGATTCCCACATCTGGACCATTTGAGCACATTCCTCTGAGCAAGTAAGTTACATTCCTACTTTGCATCTTC

upper sequence: GLYMA02G44250.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G815009_T02 (Zea mays), 3'ss of exon 4
gtagtgtaagtaacaatcttgtgtttatatgttgatcatgataaaatcatttggtggtatcgtgaagatgtgtgctttcaaagagcctaaacattcactttat--tttcagGGATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGGCCATTCGAGCATATTCCATTGAATAA
     ||||||||  || |    || | ||||| | |||  ||   ||                 ||||  |||||  |||   | | |   |  ||| ||    |||||| ||||| || | ||||||||||||||| || ||||| |||||||| ||||| ||||| |||||  |||  ||
-----gtaagtaa--atatcaatttcaaatgtttagcattctattctctcc--------------agattagtgct--caatttgacaatctacccaccttgctctttcagCGATGTTTCAAGCAATGATTTATGTGGGACGATTCCCACATCTGGACCATTTGAGCACATTCCTCTGAGCAA

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|6719571|gb|AW307218.1|AW307218
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAA                         GTAGTGGATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGG
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAgtagtgtaag ... ttattttcagG--G---ATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGG
EST: gi|209710100|gb|BW653555.1|BW653555
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAGT                         GGATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGGCCCTT
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAgtagtgtaag ... ttattttcagGGATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGGCCATT
EST: gi|192301521|gb|FG994761.1|FG994761
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAA                         GTAGTGGATGTTTCCAACAATGATTTATGTGGTACAATTCCTACATTTGGG
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAgtagtgtaag ... ttattttcagG--G---ATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGG
EST: gi|14259491|gb|BG882399.1|BG882399
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|14259491|gb|BG882399.1|BG882399
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|14259491|gb|BG882399.1|BG882399
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|17021803|gb|BM092837.1|BM092837
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|17021803|gb|BM092837.1|BM092837
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|17021803|gb|BM092837.1|BM092837
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|8285001|gb|BE022560.1|BE022560
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|8285001|gb|BE022560.1|BE022560
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|8285001|gb|BE022560.1|BE022560
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|120530833|gb|EH258966.1|EH258966
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|120530833|gb|EH258966.1|EH258966
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|120530833|gb|EH258966.1|EH258966
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|14011806|gb|BG726728.1|BG726728
EST:     TGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: TGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|14011806|gb|BG726728.1|BG726728
EST:     TGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: TGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|14011806|gb|BG726728.1|BG726728
EST:     TGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: TGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|120531133|gb|EH259266.1|EH259266
EST:     GT                         GGATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGGCCAT
genomic: --gtagtgtaag ... ttattttcagGGATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGGCCAT
EST: gi|120531133|gb|EH259266.1|EH259266
EST:     GT                         GGATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGGCCAT
genomic: --gtagtgtaag ... ttattttcagGGATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGGCCAT
EST: gi|120531133|gb|EH259266.1|EH259266
EST:     GT                         GGATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGGCCAT
genomic: --gtagtgtaag ... ttattttcagGGATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGGCCAT
EST: gi|120530964|gb|EH259097.1|EH259097
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAA                         GTAGTGGATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGG
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAgtagtgtaag ... ttattttcagG--G---ATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGG
EST: gi|58020483|gb|CX707225.1|CX707225
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|58020483|gb|CX707225.1|CX707225
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|58020483|gb|CX707225.1|CX707225
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|21677284|gb|BQ629635.1|BQ629635
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|21677284|gb|BQ629635.1|BQ629635
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|21677284|gb|BQ629635.1|BQ629635
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|23726214|gb|BU761091.1|BU761091
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAA                         GTAGTGGATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGG
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAgtagtgtaag ... ttattttcagG--G---ATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGG
EST: gi|21601428|gb|BQ611759.1|BQ611759
EST:     AATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: AATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|21601428|gb|BQ611759.1|BQ611759
EST:     AATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: AATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|21601428|gb|BQ611759.1|BQ611759
EST:     AATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAGTA                       
genomic: AATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTT-AA--Agtagtgtaag ... ttattttc
EST: gi|120530517|gb|EH258650.1|EH258650
EST:     GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAA                         GTAGTGGATGTCTCCAACAATGATTCATGTGGTACAATTCCTACATCTGGG
genomic: GACTAACTGGCCCAATTCCCAAGGAACTGTCTGCTGTTTCAAGCCTTAAAgtagtgtaag ... ttattttcagG--G---ATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtatcgtgaagatgtgtgctttcaaagagcctaaacattcactttattttcagGGATGTCTCCAACAATGATTTATGTGGTACAATTCCTACATCTGGGCCATTCGAGCATATTCCATTGAATAA
                              gcctaaa  putative branch site (score: 3)
                                       ttcactttattttc  putative PPT
                                      attcactttatttt  TA-rich tract