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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaaaaggtttccaaataaaatgggtcttatgatatgaaactgctttaatttgatctatattcatacaggttaacaatattaagaattatttgctttctagATTGCCTTTCTTAAATCAAGGAGAGGATTTGTCCGCATAGCAATGGAGAAGGGAAAACCCCTGGTTCCAGTTTTCTGCTTTGGTCAGGTATTTATTTCTT

Basic information

species Glycine max
transcript GLYMA16G21960.3
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G21960.3 (Glycine max), 3'ss of exon 5
lower sequence: AT3G51520.1 (Arabidopsis thaliana), 3'ss of exon 4
gaaaaggtttccaaataaaatgggtcttatgatatgaaactgctttaatttgatctatattcatacaggttaacaat------attaagaattattt-gctttctagATTGCCTTTCTTAAATCAAGGAGAGGATTTGTCCGCATAGCAATGGAGAAGGGAAAACCCCTGGTTCCAGTTTTCTGCTTTGGTCAGGTATTTATTTCTT
      || ||  |   |  ||   ||| | |  ||||          |||| |     | || ||||  | |  ||      ||| |    ||| |  | ||  ||| || ||| |||  |   || ||||||||||| |||||||| |||||  |||| |  || ||||||||||| |||||||||||||||             
------gtatctcatgtatgtgtagcttgtaaactgaagagaaaagggtttgtttctcctgca-acagtctgatgatttccttattgaactgtatctcacattgcagAATGTCTTCCTTTCAAGGAGAAGAGGATTTGTGCGCATAGCCATGGAACAGGGGAGCCCTCTGGTTCCAGTATTCTGCTTTGGTCAG-------------

upper sequence: GLYMA16G21960.3 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0044g01940.t01 (Vitis vinifera), 3'ss of exon 5
-------gaaaaggtttccaaataaaatgggtcttatgatatgaaactgctttaatttgatctatattcatacaggttaacaatattaagaattatttgctttctagATTGCCTTTCTTAAATCAAGGAGAGGATTTGTCCGCATAGCAATGGAGAAGGGAAAACCCCTGGTTCCAGTTTTCTGCTTTGGTCAGGTATTTATTTCTT
       ||   || ||  | ||   |   | || |  |  |      |    | |   | ||  |       |      ||   ||     |||||||  || ||| ||||||| || || ||||| | ||||||||| |||||||| ||||||| ||||   ||| ||||||||||||||||||||||||||             
ggattgggacctgggtttaacatgggaaaagcctga-aaggtaggtgaggaacagtccaacctg-aggagctgaaacaggcatctttt---tttatttg--ttgtagGTTGCCTTCCTCAAGTCAAGAAAAGGATTTGTTCGCATAGCCATGGAGATGGGACGGCCCTTGGTTCCAGTTTTCTGCTTTGGTCAG-------------
















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|24136212|gb|BU926722.1|BU926722
EST:     TGATACCTGGTGGAGTGCAAGAAGCATTTCTCATTGAGCATGGTTCTGAG                         ATTGCCTTTCTTAAATCAAGGAGAGGATTTGTCCGCATAGCAATGGAGAAG
genomic: TGATACCTGGTGGAGTGCAAGAAGCATTTCTCATTGAGCATGGTTCTGAGgtacattgct ... tgctttctagATTGCCTTTCTTAAATCAAGGAGAGGATTTGTCCGCATAGCAATGGAGAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatttgatctatattcatacaggttaacaatattaagaattatttgctttctagATTGCCTTTCTTAAATCAAGGAGAGGATTTGTCCGCATAGCAATGGAGAAGGGAAAACCCCTGGTTCCAGTTTTCTGCTTTGGTCAGGTATTTATTTCTT
                      ggttaac  putative branch site (score: 3)
                                           tttgctttct  putative PPT
                        ttaacaatattaagaa  TA-rich tract