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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctgtatgttacagttttgtatgataataacaattttttacatttagttgctttgatgttggtctctgtttaacatttttttgtatgtttccgtgattagTGCTCAAAGCACGGCTAAGATTGAGGAACTGCTTCTAGAAGATCAAAATGTTAAGCGCAGAAGGGATCGAATCCAGAAACAATCATCCCTTCTCTCGAAA

Basic information

species Glycine max
transcript GLYMA09G00430.1
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G00430.2 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM2G157462_T01 (Zea mays), 3'ss of exon 20
tctgtatgttacagttttgtatgataataacaattttttacatttagttgc--tttgatgttggtctctgtttaacatttttt-----tgtatgtttccgtgattagTGCTCAAAGCACGGCTAAGATTGAGGAACTGCTTCTAGAAGATCAAAATGTTAAGCGCAGAAGGGATCGAATCCAGAAACAATCATCCCTTCTCTCGAAA
     || || | | |    ||  |  |  | || | ||   | | | |    |||  | || ||   | || || |  ||||     |  ||  || | | |  || |  |||||||  ||||||||||| || ||||||| ||| || || |||| |||||||||||||||      ||| ||||||||||| || || || |||
-----atatttctgatcg--attgtggttgccatatattcagtatggcttatgtttatttttagtacattttgaatagcttttgtatttcaatcatttctttaccagCGGGCAAAGCAATGCTAAGATTGAAGAGCTGCTTCAAGAGGACCATAATGCTAAGCGCAGAAGGGAGAAGTACCAAAAACAATCATCTCTCCTGTCAAAA

upper sequence: GLYMA09G00430.2 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM5G811223_T01 (Zea mays), 3'ss of exon 8
tctgtatgttacagttttgtatgataataacaattttttacatttagttgctttgatgttggtctctgtttaacattt---ttttgtatgtttccgtgattagTGCTCAAAGCACGGCTAAGATTGAGGAACTGCTTCTAGAAGATCAAAATGTTAAGCGCAGAAGGGATCGAATCCAGAAACAATCATCCCTTCTCTCGAAA
  | | || | || || ||  || ||   |     | |  | | |  ||  |||   | |    | ||  || | |||   ||||  ||  || |   |  || |  |||||||  ||||||||||| || || |||| ||| ||||| |||| |||||||||||||||      ||| ||||||||||| || || || |||
--tttctgat-caattgtggttgctatatattgaatatggcttatgcttattttttgggtacattttgaatagcttttatattttcaatcatttctctaccagCGGGCAAAGCAACGCTAAGATTGAAGAGCTTCTTCAAGAGGATCATAATGCTAAGCGCAGAAGGGAGAAGTACCAAAAACAATCATCTCTCCTGTCAAAA
















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|21602618|gb|BQ612949.1|BQ612949
EST:     GTTGAAAAGGCTAAGGAAGACATGCTGAATCAATTATATAGCTCTGTCAG                         TGCTCAAAGCACGGCTAAGATTGAGGAACTGCTTCTAGAAGATCAAAATGT
genomic: GTTGAAAAGGCTAAGGAAGACATGCTGAATCAATTATATAGCTCTGTCAGgttcagatat ... ccgtgattagTGCTCAAAGCACGGCTAAGATTGAGGAACTGCTTCTAGAAGATCAAAATGT
EST: gi|14125800|gb|BG790238.1|BG790238
EST:     GTTGAAAAGGCTAAGGAAGACATGCTGAATCAATTATATAGCTCTGTCAG                         TGCTCAAAGCACGGCTAAGATTGAGGAACTGCTTCTAGAAGATCAAAATGT
genomic: GTTGAAAAGGCTAAGGAAGACATGCTGAATCAATTATATAGCTCTGTCAGgttcagatat ... ccgtgattagTGCTCAAAGCACGGCTAAGATTGAGGAACTGCTTCTAGAAGATCAAAATGT
EST: gi|15000625|gb|BI321439.1|BI321439
EST:     GTTGAAAAGGCTAAGGAAGACATGCTGAATCAATTATATAGCTCTGTCAG                         TGCTCAAAGCACGGCTAAGATTGAGGAACTGCTTCTAGAAGATCAAAATGT
genomic: GTTGAAAAGGCTAAGGAAGACATGCTGAATCAATTATATAGCTCTGTCAGgttcagatat ... ccgtgattagTGCTCAAAGCACGGCTAAGATTGAGGAACTGCTTCTAGAAGATCAAAATGT
EST: gi|5677594|gb|AI938724.1|AI938724
EST:     GTTGAAAAGGCTAAGGAAGACATGCTGAATCAATTATATAGCTCTGTCAG                         TGCTCAAAGCACGGCTAAGATTGAGGAACTGCTTCTAGAAGATCAAAATGC
genomic: GTTGAAAAGGCTAAGGAAGACATGCTGAATCAATTATATAGCTCTGTCAGgttcagatat ... ccgtgattagTGCTCAAAGCACGGCTAAGATTGAGGAACTGCTTCTAGAAGATCAAAATGT
EST: gi|209705402|gb|BW678519.1|BW678519
EST:     GTTGAAAAGGCTAAGGAAGACATGCTGAATCAATTATATAGCTCTGTCAG                         TGCTCAAAGCACAGCTAAGATTGAGGAACTGCTTCTAGAAGATCAAAATGT
genomic: GTTGAAAAGGCTAAGGAAGACATGCTGAATCAATTATATAGCTCTGTCAGgttcagatat ... ccgtgattagTGCTCAAAGCACGGCTAAGATTGAGGAACTGCTTCTAGAAGATCAAAATGT
EST: gi|192300150|gb|FG989272.1|FG989272
EST:     GTTGAAAAGGCTAAGGAAGACATGCTGAATCAATTATATAGCTCTGTCAG                         TGCTCAAAGCACGGCTAAGATTGAGGAACTGCTTCTAGAAGATCAAAATGT
genomic: GTTGAAAAGGCTAAGGAAGACATGCTGAATCAATTATATAGCTCTGTCAGgttcagatat ... ccgtgattagTGCTCAAAGCACGGCTAAGATTGAGGAACTGCTTCTAGAAGATCAAAATGT
EST: gi|9203407|gb|BE329560.1|BE329560
EST:     GTTGAAAAGGCTAAGGAAGACATGCTGAATCAATTATATAGCTCTGTCAG                         TGCTCAAAGCACGGCTAAGATTGAGGAACTGCTTCTAGAAGATCAAAATGT
genomic: GTTGAAAAGGCTAAGGAAGACATGCTGAATCAATTATATAGCTCTGTCAGgttcagatat ... ccgtgattagTGCTCAAAGCACGGCTAAGATTGAGGAACTGCTTCTAGAAGATCAAAATGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttgctttgatgttggtctctgtttaacatttttttgtatgtttccgtgattagTGCTCAAAGCACGGCTAAGATTGAGGAACTGCTTCTAGAAGATCAAAATGTTAAGCGCAGAAGGGATCGAATCCAGAAACAATCATCCCTTCTCTCGAAA
                      gtttaac  putative branch site (score: 3)
                                        tgtttcc  putative PPT
                       tttaacatttttttgt  TA-rich tract