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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tacttaggtttgactatgcaagcggacatattatatcggtttctgctgtttgtgtttcttgtgtttcctagagaatatgattgacatttttcttttgcagGCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAGGAAGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTG

Basic information

species Glycine max
transcript GLYMA10G34370.1
intron # 3
splice site 3'
intron type U2

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|120532166|gb|EH260299.1|EH260299
EST:     GGTTTCGTCAACAATTCTCGTCAATATCCAACTATGGCCCTCAAG                         GCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAG
genomic: GGTTTCGTCAACAATTCTCGTCAATATCCAACTATGGCCCTCAAGgtatctataa ... tcttttgcagGCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAG
EST: gi|192332512|gb|FK024273.1|FK024273
EST:     GGTTTCGTCAACAATTCTCGTCAATATCCAACTATGGCCCTCAAG                         GCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAG
genomic: GGTTTCGTCAACAATTCTCGTCAATATCCAACTATGGCCCTCAAGgtatctataa ... tcttttgcagGCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAG
EST: gi|17022153|gb|BM093187.1|BM093187
EST:     GGTTTCGTCAACAATTCTCGTCAATATCCAACTATGGCCCTCAAG                         GCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAG
genomic: GGTTTCGTCAACAATTCTCGTCAATATCCAACTATGGCCCTCAAGgtatctataa ... tcttttgcagGCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAG
EST: gi|26047793|gb|CA784466.1|CA784466
EST:     GGTTTCGTCAACAATTCTCGTCAATATCCAACTATGGCCCTCAAG                         GCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAG
genomic: GGTTTCGTCAACAATTCTCGTCAATATCCAACTATGGCCCTCAAGgtatctataa ... tcttttgcagGCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAG
EST: gi|213617950|gb|DB967312.1|DB967312
EST:     GGTTTCGTCAACAATTCTCGTCAATATCCAACTATGGCCCTCAAG                         GCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAG
genomic: GGTTTCGTCAACAATTCTCGTCAATATCCAACTATGGCCCTCAAGgtatctataa ... tcttttgcagGCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAG
EST: gi|10845400|gb|BF068537.1|BF068537
EST:     GGTTTCGTCAACAATTCTCGTCAATATCCAACTATGGCCCTCAAG                         GCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAG
genomic: GGTTTCGTCAACAATTCTCGTCAATATCCAACTATGGCCCTCAAGgtatctataa ... tcttttgcagGCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAG
EST: gi|24205361|gb|BU964614.1|BU964614
EST:     GGTTTCGTCAACAATTCTCGTCAATATCCAACTATGGCCCTCAAG                         GCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAG
genomic: GGTTTCGTCAACAATTCTCGTCAATATCCAACTATGGCCCTCAAGgtatctataa ... tcttttgcagGCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAG
EST: gi|209709966|gb|BW681009.1|BW681009
EST:     GGTTTCGTCAACAATTCTCGTCAATATCCAACTATGGCCCTCAAG                         GCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAG
genomic: GGTTTCGTCAACAATTCTCGTCAATATCCAACTATGGCCCTCAAGgtatctataa ... tcttttgcagGCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAG
EST: gi|7589574|gb|AW705345.1|AW705345
EST:     GGTTTCGTCAACAATTCTCGTCAATATCCAACTATGGCCCTCAAG                         GCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAG
genomic: GGTTTCGTCAACAATTCTCGTCAATATCCAACTATGGCCCTCAAGgtatctataa ... tcttttgcagGCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgtttgtgtttcttgtgtttcctagagaatatgattgacatttttcttttgcagGCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAGGAAGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTG
                                 gattgac  putative branch site (score: 3)
                                       catttttcttttgc  CT-rich tract
                                        atttttctttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tacttaggtttgactatgcaagcggacatattatatcggtttctgctgtttgtgtttcttgtgtttcctagagaatatgattgacatttttcttttgcagGCTGCCTCAGGTTCTATACCAAGTGCAGACACAAGTAGTGCCGATAAGGAGGAAGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - tgcaagc
- - - - - - - - - - - - - - - - - - - - - ctgctgt