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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttttgaattctctttgcttttggaaatatgcattttctataacctttctctggattttcatgtaatacctgatcttgcagTCGTCGAGCTGAAAAGTATTTTAAAAGAGGTACACGATTAAGTTGGCCTGATAGTTCAACTTCAAGAGAAAGCATGAGAGCAGTTTGGAAATTGCCACGG

Basic information

species Glycine max
transcript GLYMA03G33100.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G33100.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv08s0040g02640.t01 (Vitis vinifera), 3'ss of exon 10
-------gtaagcttttgaattctctttgcttttggaaatatgcattttctataacctttctctggattttcatgtaatacctgatct---tgcagTCGTCGAGCTGAAAAGTATTTTAAAAGAGGTACACGATTAAGTTGGCCTGATAGTTCAACTTCAAGAGAAAGCATGAGAGCAGTTTGGAAATTGCCACGG
         |   | | |  |  || ||  || || |    | || |   | ||  | ||  |    || | |     |  ||||||    ||||| || || ||||| || ||||| |  |||||| ||||||||  |||||| ||  |  |||| || |||||||||||||||||||||||||||||||| || 
gtaagatagagtttgtcggttgttccttttttgtgcattctttcactgcttcta--cattggcaattttcttacaccttttctgatccctatgcagCCGCCGTGCTGAGAAATATTTCAGGAGAGGTGCACGATTAGATTGGCCCGAGGGCGCAACCTCTAGAGAAAGCATGAGAGCAGTTTGGAAATTGCCCCGT
















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|192302499|gb|FG994821.1|FG994821
EST:     ATGGAAAGAGTTCTAGGGCCACTACCTCCCCATATGGTGGTCAGGGCCGA                         TCGTCGAGCTGAAAAGTATTTTAAAAGAGGTACACGATTAAGTTGGCCTGA
genomic: ATGGAAAGAGTTCTAGGGCCACTACCTCCCCATATGGTGGTCAGGGCCGAgtaagctttt ... gatcttgcagTCGTCGAGCTGAAAAGTATTTTAAAAGAGGTACACGATTAAGTTGGCCTGA
EST: gi|192305976|gb|FG996492.1|FG996492
EST:     ATGGAAAGAGTTCTAGGGCCACTACCTCCCCATATGGTGGTCAGGGCCGA                         TCGTCGAGCTGAAAAGTATTTTAAAAGAGGTACACGATTAAGTTGGCCTGA
genomic: ATGGAAAGAGTTCTAGGGCCACTACCTCCCCATATGGTGGTCAGGGCCGAgtaagctttt ... gatcttgcagTCGTCGAGCTGAAAAGTATTTTAAAAGAGGTACACGATTAAGTTGGCCTGA
EST: gi|22931038|gb|BU548177.1|BU548177
EST:     TGGAAAGAGNNCTAGGGCCACTANNTCCCCATANNGGTGGTCAGGGCCGA                         TCGTCGAGCTGAAAAGTATTTTAAAAGAGGTACACGATTAAGTTGGCCTGA
genomic: TGGAAAGAGTTCTAGGGCCACTACCTCCCCATA-TGGTGGTCAGGGCCGAgtaagctttt ... gatcttgcagTCGTCGAGCTGAAAAGTATTTTAAAAGAGGTACACGATTAAGTTGGCCTGA
EST: gi|192302498|gb|FG994820.1|FG994820
EST:     ATGGAAAGAGTTCTAGGGCCACTACCTCCCCATATGGTGGTCAGGGCCGA                         TCGTCGAGCTGAAAAGTATTTTAAAAGAGGTACACGATTAAGTTGGCCTGA
genomic: ATGGAAAGAGTTCTAGGGCCACTACCTCCCCATATGGTGGTCAGGGCCGAgtaagctttt ... gatcttgcagTCGTCGAGCTGAAAAGTATTTTAAAAGAGGTACACGATTAAGTTGGCCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatgcattttctataacctttctctggattttcatgtaatacctgatcttgcagTCGTCGAGCTGAAAAGTATTTTAAAAGAGGTACACGATTAAGTTGGCCTGATAGTTCAACTTCAAGAGAAAGCATGAGAGCAGTTTGGAAATTGCCACGG
                            attttcatgtaata  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcttttgaattctctttgcttttggaaatatgcattttctataacctttctctggattttcatgtaatacctgatcttgcagTCGTCGAGCTGAAAAGTATTTTAAAAGAGGTACACGATTAAGTTGGCCTGATAGTTCAACTTCAAGAGAAAGCATGAGAGCAGTTTGGAAATTGCCACGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG