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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaatcacaacagtttctgtttatctgttatactgccattattttcttgtttagcctttaaaggaaaccataactaaactttgaatgtcactggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGATTTGTTCGTGGTCAGTTTGATCCAACATCTAAG

Basic information

species Glycine max
transcript GLYMA10G35230.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G35230.3 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g05740.1 (Oryza sativa), 3'ss of exon 2
ttaatcacaacagtttctgtttatctgttatactgccattattttcttgtttagcctttaaaggaaaccataactaaactttgaatgtcactggaa--acagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGATTTGTTCGTGGTCAGTTTGATCCAACATCTAAG
    | ||  ||  || ||     || |  |||| | || ||     | | |    || |   | | |  |   |||  | |  ||     ||       || | ||  |  | ||||| |||||||| || ||||| || |||||||| || ||||||||||||||||||||||| || || |||
--gtttactgcacattttgcc---ctttattactacaataatgcctctatatcatgtt-actagcagctttctttaacgtgtccatccttttgatgttgtagTTGGTATTGCTTGGTGACTCTGGTGTAGGGAAAAGTTGCATTGTTCTTCGCTTTGTTCGTGGTCAGTTTGATCCCACTTCCAAG

upper sequence: GLYMA10G35230.3 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os10g30520.1 (Oryza sativa), 3'ss of exon 2
--------ttaatcacaacagt--------ttctgtttatctgttatactgccattattttc-ttgtttagcctttaaaggaaa----ccataactaaactttgaatgtcactggaa---acagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGATTTGTTCGTGGTCAGTTTGATCCAACATCTAAG
        ||| |||| |  ||        |||| || || | |   |   ||||| ||  | ||   | |  ||  || ||||     |||  |     |||  || | ||   |      || | ||  |  | || ||||| |||||||| ||||| || |||||||| || ||||| |||||||||||||| || || || |||
gtttggacttactcactagtgtcttcataattcttttaatatttctcatctccattgttgacattaagttgaattggaatgaaaaggttcatgcccttcgtttttattttaccctattctgtagTTGGTATTGCTTGGAGATTCAGGTGTTGGGAAAAGTTGCATTGTTCTTCGCTTTGTCCGTGGTCAGTTTGACCCCACTTCAAAG

upper sequence: GLYMA10G35230.3 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G362088_T02 (Zea mays), 3'ss of exon 3
ttaatcacaacagtttctgtt-tatctgttatactgccattattttcttgtttagcctttaaaggaaaccataactaaactttgaatgtcactggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGATTTGTTCGTGGTCAGTTTGATCCAACATCTAAG
|   | |   ||   |   |  |  |||| ||    | | ||    ||   |      |||| |       | | |    ||  |   || |  |  | || | ||  |  | || || || |||||||| ||||| || |||||||| || ||||||||||||||||||||||| || || |||
tatgttagggcatcattaatagtggctgtgatttatctagtaaaacctgaatacctgattaacgacttttgttaatgt-tttcaaccttctcatgttatagTTGGTATTGCTGGGAGACTCAGGTGTTGGGAAAAGTTGCATTGTTCTTCGTTTTGTTCGTGGTCAGTTTGATCCTACTTCCAAG

upper sequence: GLYMA10G35230.3 (Glycine max), 3'ss of exon 2
lower sequence: AT3G54840.2 (Arabidopsis thaliana), 3'ss of exon 2
ttaatcacaacagtttctgtttatctgttatactgcca----ttattttcttg-tttagcctttaaaggaaac-cataactaaactttgaatgtcactggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGATTTGTTCGTGGTCAGTTTGATCCAACATCTAAG
||| |  |     ||  || | | | || ||  |||||    |  | |  ||| |||   ||||     | ||  |  |||||  |||| ||     ||    ||| | ||||| ||||| || ||||||||||||||||| |||||||| || |||||||| ||||||||||||||  | |||||||||
ttattttc-----ttgttgctcagcagt-attttgccaagtgtggtataattggtttcaactttgcgtaagacataccactaacttttggattcacttgattgcagTTAGTTCTATTAGGAGACTCTGGTGTTGGTAAAAGTTGTATTGTCCTTCGATTTGTACGTGGTCAGTTTGACGCTACATCTAAG

upper sequence: GLYMA10G35230.3 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0019g04680.t01 (Vitis vinifera), 3'ss of exon 2
ttaatcacaacagt-ttctgtttatctgttatactgccattattttcttgtttagcctttaaaggaaaccataactaaactttgaatgtcactggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGATTTGTTCGTGGTCAGTTTGATCCAACATCTAAG
 |      || |   || |    ||   ||     || | |||    |||  ||        |    |    | ||   ||| |    ||| ||    ||||| ||| | || || |||||||||||||| ||||||||||||||||| || ||||||||||| |||||||| || ||||| |||
ctgcaagaaatatcattatagaaattaattgatgggcaaatataggattgaataagaaccctaaattatttcagctct-cttggtccatcattgtctgcagCTGGTTTTGTTGGGGGATTCTGGTGTTGGAAAAAGCTGTATTGTTCTTCGTTTTGTTCGTGGCCAGTTTGACCCTACATCCAAG

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|5605755|gb|AI899819.1|AI899819
EST:     CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAG                         CTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
genomic: CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAGgtatttgtgt ... ctggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
EST: gi|151394915|gb|EV264786.1|EV264786
EST:     CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAG                         CTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
genomic: CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAGgtatttgtgt ... ctggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
EST: gi|193543327|gb|FK502506.1|FK502506
EST:     AATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAG                         CTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
genomic: AATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAGgtatttgtgt ... ctggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
EST: gi|193724791|gb|FK658075.1|FK658075
EST:     CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAG                         CTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
genomic: CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAGgtatttgtgt ... ctggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
EST: gi|15813084|gb|BI785359.1|BI785359
EST:     CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAG                         CTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
genomic: CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAGgtatttgtgt ... ctggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
EST: gi|308098577|gb|HO760318.1|HO760318
EST:     CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAG                         CTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
genomic: CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAGgtatttgtgt ... ctggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
EST: gi|298165609|gb|HO011658.1|HO011658
EST:     CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAG                         CTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTGCGA
genomic: CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAGgtatttgtgt ... ctggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
EST: gi|298182667|gb|HO031402.1|HO031402
EST:     CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAG                         CTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
genomic: CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAGgtatttgtgt ... ctggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
EST: gi|298183380|gb|HO028593.1|HO028593
EST:     CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAG                         CTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
genomic: CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAGgtatttgtgt ... ctggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
EST: gi|192326781|gb|FK018908.1|FK018908
EST:     CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAG                         CTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
genomic: CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAGgtatttgtgt ... ctggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
EST: gi|7286166|gb|AW598653.1|AW598653
EST:     CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAG                         CTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
genomic: CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAGgtatttgtgt ... ctggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
EST: gi|298177777|gb|HO027330.1|HO027330
EST:     CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAG                         CTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
genomic: CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAGgtatttgtgt ... ctggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
EST: gi|151411846|gb|EV281657.1|EV281657
EST:     CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAG                         CTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
genomic: CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAGgtatttgtgt ... ctggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
EST: gi|298185154|gb|HO030367.1|HO030367
EST:     CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAG                         CTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
genomic: CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAGgtatttgtgt ... ctggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
EST: gi|15201204|gb|BI424748.1|BI424748
EST:     CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAG                         CTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
genomic: CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAGgtatttgtgt ... ctggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
EST: gi|298174351|gb|HO017687.1|HO017687
EST:     CCAATTCAGAGAATGGTGGAGGACAGGACGCCAAGAATCTGAGGGTCAAG                         CTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
genomic: CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAGgtatttgtgt ... ctggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
EST: gi|192296028|gb|FG989422.1|FG989422
EST:     CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAG                         CTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA
genomic: CCAATTCAGAGAATGGTGGAGGGCAGGACGCCAAGAATCTGAGGGTCAAGgtatttgtgt ... ctggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgtttagcctttaaaggaaaccataactaaactttgaatgtcactggaaacagCTTGTTCTCTTAGGTGATTCTGGTGTTGGTAAAAGCTGTATTGTTCTACGATTTGTTCGTGGTCAGTTTGATCCAACATCTAAG
                          aactaaa  putative branch site (score: 2)
                        ataactaaa  TA-rich tract