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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taactagaaagatgacatcttagattcaacttgattgtggcaatgtatgcctcagtagaagttctgtgttgatcaacaatgtggtaacgatgcgtttcagGGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACCGGTACACGGGGCTAGGATAGTTGCCGATGTTGTTGGAAACCCAGTTCTC

Basic information

species Glycine max
transcript GLYMA17G33050.4
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G33050.4 (Glycine max), 3'ss of exon 9
lower sequence: AT4G31990.4 (Arabidopsis thaliana), 3'ss of exon 10
------------------------------------taactagaaaga-tgacatcttagattcaa-cttgattgtggcaatgtatgcctcagtagaagttctgtgttgatcaacaatgtggtaacgatgcgtttcagGGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACCGGTACACGGGGCTAGGATAGTTGCCGATGTTGTTGGAAACCCAGTTCTC
                                    |  | ||  |   ||   ||| || ||| | ||| |  ||  | |   ||  ||   || | ||| | ||            ||   |    |   ||||||||| ||||||||  ||||||||||||| || || |||||||| |||||||| || || ||||| || || || ||| |||| || ||  |   |  | | 
gtaaaacttactctaaattttcttatcatgagcctgttgcaagtgatcctggagtctcagtttctatctttaccgtcacgaaccatatctagctacaggttttatggaacctttaccagtaacactacttgctttcagGGTCAAGAGCCAGTTGAAAAGGATTGCTCGGCCTATGTACTCGAATCCACCAGTTCATGGGGCGAGAATCGTGGCCAATGTAGTGGGTGATGTAACTATG

upper sequence: GLYMA17G33050.4 (Glycine max), 3'ss of exon 9
lower sequence: Vv04s0008g06040.t01 (Vitis vinifera), 3'ss of exon 11
taactagaaagatgacatcttagattcaacttgattgtggcaatgtatgcctcagtagaagttctgtgttgatcaac----aatgtg---gtaacgatgcgtttcagGGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACCGGTACACGGGGCTAGGATAGTTGCCGATGTTGTTGGAAACCCAGTTCTC
    ||  | |||||    ||    | || |||||   ||  ||     ||| ||| | |  | || || ||| | |    ||| ||    |    || | ||||||||||||||| ||  ||||||||||||| |||||||||||||| ||||| ||  | || || |||||||| |||||| ||||||||||  | |||| ||||
---atatcatgatgaatggtttatctaaagttgatccaggtgatt----cctgagtggcaactttgggtggatgacctgctaatttgcatatttttattcttttcagGGTAAAGAGTCAGTTGAAAAGGATTGCTCGACCAATGTACTCAAATCCTCCTATTCATGGAGCTAGGATTGTTGCCAATGTTGTTGGTGATCCAGCTCTC

upper sequence: GLYMA17G33050.4 (Glycine max), 3'ss of exon 9
lower sequence: PP1S540_7V6.3 (Physcomitrella patens), 3'ss of exon 9
--------------taactagaaagatgacatcttagattcaacttgattgtggcaat---gtatgcctcagtagaagttctgtgttgatcaa---caatgtggtaacg--atgcgtttcagGGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACCGGTACACGGGGCTAGGATAGTTGCCGATGTTGTTGGAAACCCAGTTCTC
               | ||  | || | | || | || ||   |    |     ||||   | ||  | | ||  |   ||| |  |     |     |||  | |  |   || || ||||||| |||||||| ||||| ||||||||  ||||||||||||| || ||||| || ||||| ||  | || |||||| | ||||||||  | |||  | | 
gtatgccttatcaacatctctagagttcatatgtgagctttgtcaaagtcaacacaattgggcattgcgctgttcatagtctctaattgcagaatctgatgctggattgttgtgtgtatcagGGTTAAGAGCCAGCTGAAGAGGATTGCAAGACCAATGTACTCAAACCCACCTGTTCACGGTGCCCGTATTGTTGCCAACGTTGTTGGCGAGCCAACTATG

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|58022546|gb|CX709287.1|CX709287
EST:     AGGATTGGAGCAATCAATGTGATTTCATCGTCACCAGAATCTGCAGCAAG                         GGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACC
genomic: AGGATTGGAGCAATCAATGTGATTTCATCGTCACCAGAATCTGCAGCAAGgtatggtaaa ... tgcgtttcagGGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACC
EST: gi|51336363|gb|CO980229.1|CO980229
EST:     AGGATTGGAGCAATCAATGTGATTTCATCGTCACCAGAATCTGCAGCAAG                         GGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACC
genomic: AGGATTGGAGCAATCAATGTGATTTCATCGTCACCAGAATCTGCAGCAAGgtatggtaaa ... tgcgtttcagGGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACC
EST: gi|120492269|gb|EH220436.1|EH220436
EST:     AGGATTGGAGCAATCAATGTGATTTCATCGTCACCAGAATCTGCAGCAAG                         GGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACC
genomic: AGGATTGGAGCAATCAATGTGATTTCATCGTCACCAGAATCTGCAGCAAGgtatggtaaa ... tgcgtttcagGGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACC
EST: gi|151403656|gb|EV273466.1|EV273466
EST:     AGGATTGGAGCAATCAATGTGATTTCATCGTCACCAGAACCTGCAGCAAG                         GGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACC
genomic: AGGATTGGAGCAATCAATGTGATTTCATCGTCACCAGAATCTGCAGCAAGgtatggtaaa ... tgcgtttcagGGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACC
EST: gi|58022284|gb|CX709025.1|CX709025
EST:     AGGATTGGAGCAATCAATGTGATTTCATCGTCACCAGAATCTGCAGCAAG                         GGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACC
genomic: AGGATTGGAGCAATCAATGTGATTTCATCGTCACCAGAATCTGCAGCAAGgtatggtaaa ... tgcgtttcagGGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACC
EST: gi|151395412|gb|EV265289.1|EV265289
EST:     AGGATTGGAGCAATCAATGTGATTTCATCGTCACCAGAATCTGCAGCAAG                         GGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACC
genomic: AGGATTGGAGCAATCAATGTGATTTCATCGTCACCAGAATCTGCAGCAAGgtatggtaaa ... tgcgtttcagGGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACC
EST: gi|120491497|gb|EH219664.1|EH219664
EST:     AGGATTGGAGCAATCAATGTGATTTCATCGTCACCAGAATCTGCAGCAAG                         GGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACC
genomic: AGGATTGGAGCAATCAATGTGATTTCATCGTCACCAGAATCTGCAGCAAGgtatggtaaa ... tgcgtttcagGGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACC
EST: gi|120530683|gb|EH258816.1|EH258816
EST:     AGGATTGGAGCAATCAATGTGATTTCATCGTCACCAGAATCTGCAGCAAG                         GGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACC
genomic: AGGATTGGAGCAATCAATGTGATTTCATCGTCACCAGAATCTGCAGCAAGgtatggtaaa ... tgcgtttcagGGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgcctcagtagaagttctgtgttgatcaacaatgtggtaacgatgcgtttcagGGTAAAGAGCCAACTGAAAAGGATTGCCCGACCAATGTACTCTAATCCACCGGTACACGGGGCTAGGATAGTTGCCGATGTTGTTGGAAACCCAGTTCTC
                                    tggtaac  putative branch site (score: 2)