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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgcaatgagcccaaaaattttggcattctctttagaccctgtcccatattttatttcttaaatttagtcatggtcacctgtcaagaaaaaaaatcatttttattttcccttttagGCAGAGGTTTTATACAAGCTTATAGAAGATTGTGCTGGAGTCAAGGGTGACGACTCAGAAATTGTCCTTGACCTGTTTTGTGGAACAGGCACCATAGGTC

Basic information

species Glycine max
transcript GLYMA13G42890.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G42890.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G115198_T02 (Zea mays), 3'ss of exon 5
gtttgcaatgagcccaaaaattttggcattctctttagaccctgtcccatattttatttcttaaatttagtcatggtcacctgtcaagaaaaaaaatcatttttattt--tcccttttagGCAGAGGTTTTATACAAGCTTATAGAAGATTGTGCTGGAGTCAAGGGTGACGACTCAGAAATTGTCCTTGACCTGTTTTGTGGAACAGGCACCATAGGTC
                 | |  |  | |    |  || |     |   | |  | |  | | ||||   |||     |   |||  |   |    | |  | |  |||     |||  |||| || ||| | ||||||||||| ||||||| ||||||  | || || || | ||| |||||||| ||||| |||||||||||||| || ||||| ||| 
---------------gtatagatgagaaagaccagtaaa-----tggaaaaaatgaactttgaaatgatgtcccttcctggtgtttaatgatctgagccctctcctttgacttcttgcagGCTGATGTTCTTTACAAGCTTATTGAAGATTCTGCTGGGCTTAAAGGAGATGGCTCTGAAATTGTTCTTGATCTGTTTTGTGGAACTGGAACCATTGGTT

upper sequence: GLYMA13G42890.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv09s0002g02670.t01 (Vitis vinifera), 3'ss of exon 6
----------------------gtttgcaatgagcccaaa--aattttggcattctctttagaccctgtcccatattttatttcttaaatttagtcatggtcacctgtcaagaaaaaaaatcatttttattttcccttttagGCAGAGGTTTTATACAAGCTTATAGAAGATTGTGCTGGAGTCAAGGGTGACGACTCAGAAATTGTCCTTGACCTGTTTTGTGGAACAGGCACCATAGGTC
                       | | |  | ||| ||      |||||  ||||| |    |   | || ||  |||  |||| ||  |    |  |||       |  | |  |||    |    | || |    || ||||||||||  | || || ||||||||||||||||||||  | |  ||||||| ||| |||||||| |||||||||||||||||||| || ||||| ||||
gtatgctgcatgatgaaattgaatgtactgtcagctcatgctggttttgatattctgtccctatagtctctcac-tttagtttcctatctagctttttggatgttccttgatagcaaattctaagact-ttataatgttcagGCAGAGGTGCTGTATAAACTTATAGAAGATTGTGCTGGTCTTAGAGGTGACGGCTCTGAAATTGTTCTTGACCTGTTTTGTGGAACTGGAACCATTGGTC
















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|151405629|gb|EV275443.1|EV275443
EST:     TTACATTCCAAATATCAGCCAACTCTTTCTTTCAAACAAATACTTATCAG                         GCAGAGGTTTTATACAAGCTTATAGAAGATTGTGCTGGAGTCAAAGGGTGA
genomic: TTACATTCCAAATATCAGCCAACTCTTTCTTTCAAACAAATACTTATCAGgtttgcaatg ... tcccttttagGCAGAGGTTTTATACAAGCTTATAGAAGATTGTGCTGGAGTCAA-GGGTGA
EST: gi|10234615|gb|BE803503.1|BE803503
EST:     TTACATTCCAAATATCAGCCAACTCTTTCTTTCAAACAAATACTTATCAG                         GCAGAGGTTTTATACAAGCTTATTAAAAGATTGTGCTGGAGTCAAGGGTGA
genomic: TTACATTCCAAATATCAGCCAACTCTTTCTTTCAAACAAATACTTATCAGgtttgcaatg ... tcccttttagGCAGAGGTTTTATACAAGCTTA-TAGAAGATTGTGCTGGAGTCAAGGGTGA
EST: gi|18040955|gb|BM309249.1|BM309249
EST:     TTACATTCCAAATATCAGCCAACTCTTTCTTTCAAACAAATACTTATCAG                         GCAGAGGTTTTATACAAGCTTATAGAAGATTGTGCTGGAGTCAAGGGTGAC
genomic: TTACATTCCAAATATCAGCCAACTCTTTCTTTCAAACAAATACTTATCAGgtttgcaatg ... tcccttttagGCAGAGGTTTTATACAAGCTTATAGAAGATTGTGCTGGAGTCAAGGGTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatttagtcatggtcacctgtcaagaaaaaaaatcatttttattttcccttttagGCAGAGGTTTTATACAAGCTTATAGAAGATTGTGCTGGAGTCAAGGGTGACGACTCAGAAATTGTCCTTGACCTGTTTTGTGGAACAGGCACCATAGGTC
                                 tcatttttattttccc  CT-rich tract
                         aaaaaaaatcattttt  TA-rich tract