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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttctctctctctcccttttccccaattttttgtttatttttaaaattatttgttaaccgtttgtttttctttgtgtgcgtgtgtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACACTACCCTTTACTGGGATTCTTTGCTATTGCTGAAAATGAATCTATTGGA

Basic information

species Glycine max
transcript GLYMA08G40200.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G40200.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os08g34480.1 (Oryza sativa), 3'ss of exon 3
gtgagtttctctctctctcccttttccccaattttttgtttatttttaaaattatttgttaaccgtttgtttttctttgtgtgcgtgtgtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACACTACCCTTTACTGGGATTCTTTGCTATTGCTGAAAATGAATCTATTGGA
|| ||| | ||| | ||     |   |  || | | |  ||     |  | | | ||  ||       | |||  ||| |             |||||||| |||||||| ||||| ||| | |||||||||||||| |||||||| ||||| ||  | |||| ||  ||| | |||||||| |||||||| ||||||
gtaagtatatctttttccaaaataaacaaaaatgtgttgttgggaatgtagtaacttagtattgag--gatttcttttat-------------tgcagTGAATGGGCAGTAAACATCCAAAGGGATAGCTATGCATCCTATATTGGGCACTATCCAATGCTGGCATATTTTTCCATTGCTGAGAATGAATCAATTGGA

upper sequence: GLYMA08G40200.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G14342.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgagtttctctctctctcccttttccccaattttttgtttatttttaaaattatttgttaaccgtttgtttttctttgtgtgcgtgtgtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACACTACCCTTTACTGGGATTCTTTGCTATTGCTGAAAATGAATCTATTGGA
|||||||||| |   | |   | |||   | |||| | |  ||| ||   |||   |  |||    | |  ||  |||   ||         || |||||||||||| ||||||||||| || ||||| ||||| ||||| ||||| ||||||||| | ||   || ||||||||||||||| || || |||||||||
gtgagtttcttttgattttagtgttcaa-atttttatatgcattgtttttattggctactaatttgtggaattggtttaaatg---------gtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCACTACCCTATGCTTTCATACTTTGCTATTGCTGAGAACGAGTCTATTGGA

upper sequence: GLYMA08G40200.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0049g01230.t01 (Vitis vinifera), 3'ss of exon 2
gtgagtttctctctctctcccttttccccaattttttgtttatttttaaaattatttgttaaccgtttgtttttctttgtgtgcgtgt---gtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACACTACCCTTTACTGGGATTCTTTGCTATTGCTGAAAATGAATCTATTGGA
                 |   |   |    |||||   |||  || | |   | ||  |||   |||| | |||||| |  |   |||   ||||| ||||||| ||||| ||||| || || || |||||||||||||||||| |||| |||||||| |||||||  |  ||||||||||||||||| ||||| ||||||
----------------gtaagtaacctattattttagatttggttgtcatcattttatttataggtttttctttcttagatttgatgttttgtgtgggcagTGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCACTACCCCTTACTGGCGTATTTTGCTATTGCTGAAAACGAATCAATTGGA

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|14196138|gb|BE820012.2|BE820012
EST:     CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATT                         TGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
genomic: CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATTgtgagtttct ... gtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
EST: gi|120496264|gb|EH224431.1|EH224431
EST:     CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATT                         TGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
genomic: CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATTgtgagtttct ... gtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
EST: gi|151399159|gb|EV269030.1|EV269030
EST:     CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATT                         TGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
genomic: CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATTgtgagtttct ... gtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
EST: gi|13563498|gb|BG551718.1|BG551718
EST:     CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATT                         TGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
genomic: CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATTgtgagtttct ... gtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
EST: gi|15816158|gb|BI788433.1|BI788433
EST:     CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATT                         TGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
genomic: CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATTgtgagtttct ... gtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
EST: gi|7234170|gb|AW569510.1|AW569510
EST:     CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATT                         TGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
genomic: CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATTgtgagtttct ... gtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
EST: gi|120529548|gb|EH257682.1|EH257682
EST:     CCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATT                         TGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
genomic: CCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATTgtgagtttct ... gtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
EST: gi|27423463|gb|CA934983.1|CA934983
EST:     CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATT                         TGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
genomic: CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATTgtgagtttct ... gtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
EST: gi|38192832|gb|CF922038.1|CF922038
EST:     CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATT                         TGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
genomic: CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATTgtgagtttct ... gtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
EST: gi|120529853|gb|EH257987.1|EH257987
EST:     CCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATT                         TGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
genomic: CCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATTgtgagtttct ... gtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
EST: gi|208297831|gb|GE090974.1|GE090974
EST:     CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATT                         TGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
genomic: CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATTgtgagtttct ... gtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
EST: gi|58018538|gb|CX705280.1|CX705280
EST:     AGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATT                         TGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
genomic: AGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATTgtgagtttct ... gtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
EST: gi|120533322|gb|EH261455.1|EH261455
EST:     CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATT                         TGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
genomic: CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATTgtgagtttct ... gtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
EST: gi|9259379|gb|BE347526.1|BE347526
EST:     CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATT                         TGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
genomic: CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATTgtgagtttct ... gtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
EST: gi|209703683|gb|BW670673.1|BW670673
EST:     ATGTTGGAACTGGCCATGCCGATTTGAACAGATT                         TGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
genomic: ATGTTGGAACTGGCCATGCCGATTTGAACAGATTgtgagtttct ... gtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
EST: gi|6746775|gb|AW317231.1|AW317231
EST:     CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATT                         TGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
genomic: CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATTgtgagtttct ... gtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
EST: gi|213601870|gb|DB980222.1|DB980222
EST:     CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATT                         TGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA
genomic: CATCTCCAAGCCAAATATGTTGGAACTGGCCATGCCGATTTGAACAGATTgtgagtttct ... gtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttaaaattatttgttaaccgtttgtttttctttgtgtgcgtgtgtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACACTACCCTTTACTGGGATTCTTTGCTATTGCTGAAAATGAATCTATTGGA
             tgttaac  putative branch site (score: 2)
     aaattatttgttaa  TA-rich tract