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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttattttcatttaccaagataaaatgtaataacataaaatgactttgcttattttctatgcgcgattgattgctcttactattgtgcagATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGCCTACAGTCATCACATAATGGACAATTCCACAACCACTTGATCAAGTTGT

Basic information

species Glycine max
transcript GLYMA10G38590.1
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G38590.1 (Glycine max), 3'ss of exon 21
lower sequence: AT5G51820.1 (Arabidopsis thaliana), 3'ss of exon 21
gttattttcatttaccaagataaaatgtaataacataaaatgactttgcttattttctatgcgcgattgattgctcttactattgtgcagATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGCCTACAGTCATCACATAATGGACAATTCCACAA---CCACTTGATCAAGTTGT
      ||| ||        |     |  | |    || ||| |   | ||    | ||     |||| ||  |  ||   ||  | ||||| | ||| | || || |||||||| || ||||||||||||||||||||||| || ||||| |||| | |   | |  ||||    ||  | ||| | |    
-----gttcgttcttggttttgtttcgggagagttaaagatgtcccagttttgactttagtaatgattcatctca-ttgtcatgctacagATCTTGCATTGTCTGTATCAAAGCTGAAGGACTTCACAGGGAGGGAGAAGCCCACTGTCATTACATGAAGAGAAGTGTCACATGGTCCTTTCGATAAGGC---

upper sequence: GLYMA10G38590.1 (Glycine max), 3'ss of exon 21
lower sequence: Vv16s0022g02320.t01 (Vitis vinifera), 3'ss of exon 21
gttattttcatttaccaagataaaatgtaataacataaaatgactttgcttattttctatgcgcgattgattgctcttactattgtgcagATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGCCTACAGTCATCACATAATGGACAATTCCA--CAACCACTTGATCAAGTTGT
                 || | ||      |  || || || |  |  ||  | | | | |      | | |  | |    ||  |  |||||||||  ||||  |||| |||||||| ||||||||||| |||||||| |||||||| ||||||||| | ||| | |||  |||   | |  || | |   
--------------gttagttcaatgtcgtttccacaagataaactaactcgtat-caaggtattgattacttatttgctcatgttttagATTTGGCGTTATCTTTGTCGAAGCTCAAGGACTTCACAGGAAGGGAGAAACCTACAGTGATCACATAAGGCACATTCCCAGTCAATTTCATTGTCCAATG--
















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|120495856|gb|EH224023.1|EH224023
EST:     TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAG                         ATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
genomic: TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAGgttattttca ... tattgtgcagATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
EST: gi|4260048|gb|AI416544.1|AI416544
EST:     TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAG                         ATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
genomic: TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAGgttattttca ... tattgtgcagATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
EST: gi|57574855|gb|CX547830.1|CX547830
EST:     TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAG                         ATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
genomic: TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAGgttattttca ... tattgtgcagATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
EST: gi|120494277|gb|EH222444.1|EH222444
EST:     TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAG                         ATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
genomic: TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAGgttattttca ... tattgtgcagATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
EST: gi|31309609|gb|CD394812.1|CD394812
EST:     TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAG                         ATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
genomic: TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAGgttattttca ... tattgtgcagATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
EST: gi|58020248|gb|CX706990.1|CX706990
EST:     TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAG                         ATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
genomic: TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAGgttattttca ... tattgtgcagATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
EST: gi|192333011|gb|FK024660.1|FK024660
EST:     TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAG                         ATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGT
genomic: TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAGgttattttca ... tattgtgcagATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
EST: gi|120494776|gb|EH222943.1|EH222943
EST:     TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAG                         ATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
genomic: TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAGgttattttca ... tattgtgcagATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
EST: gi|4259997|gb|AI416493.1|AI416493
EST:     TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAG                         ATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
genomic: TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAGgttattttca ... tattgtgcagATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
EST: gi|31310494|gb|CD395697.1|CD395697
EST:     TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAG                         ATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
genomic: TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAGgttattttca ... tattgtgcagATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
EST: gi|58015952|gb|CX702694.1|CX702694
EST:     TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAG                         ATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCCCAGGGAGGGAGAAGC
genomic: TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAGgttattttca ... tattgtgcagATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
EST: gi|10231645|gb|BE800533.1|BE800533
EST:     TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAG                         ATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC
genomic: TGTCTCTAAACATGATGTTGATGCTCAAATTGCCTTAAAACCATTAATAGgttattttca ... tattgtgcagATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaaatgactttgcttattttctatgcgcgattgattgctcttactattgtgcagATTTGGCAATATCCGTGTCAAAGCTCAAAGACTTCACAGGGAGGGAGAAGCCTACAGTCATCACATAATGGACAATTCCACAACCACTTGATCAAGTTGT
                                      ctcttac  putative branch site (score: 3)
                                      ctcttact  CT-rich tract
              ttattttctat  TA-rich tract