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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttggaatcttatttgatttacttgaagagttggaatgttgtttcttcttccctcgttttgttttaacttgtgattgaaaattgaagaaatgttcctattttcagTTGGGAGTAAGCAAGACAAGATACCCCTTGACTCAGCAATGAAATGAACAGCGGTTTGAGGTTTTGATCACCTGCTGAAAACTTGAAGACTCTTCCTAAT

Basic information

species Glycine max
transcript GLYMA15G02350.1
intron # 5
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|11413713|gb|BF425724.1|BF425724
EST:     AGTGAAGAGGCTACGAGTGTTGAAGAGTTCTGAGCTTTCTGCTTTTACCC                         TTGGGAGTAAGCAAGACAAGATACCCCTTGACTCAGCAATGAAATGAACAG
genomic: AGTGAAGAGGCTACGAGTGTTGAAGAGTTCTGAGCTTTCTGCTTTTACCCgtgagttgga ... ctattttcagTTGGGAGTAAGCAAGACAAGATACCCCTTGACTCAGCAATGAAATGAACAG
EST: gi|207799167|gb|GD768194.1|GD768194
EST:     AGTGAAGAGGCTACGAGTGTTGAAGAGTTCTGAGCTTTCTGCTTTTACCC                         TTGGGAGTAAGCAAGACAAGATACCCCTTGACTCAGCAATGAAATGAACAG
genomic: AGTGAAGAGGCTACGAGTGTTGAAGAGTTCTGAGCTTTCTGCTTTTACCCgtgagttgga ... ctattttcagTTGGGAGTAAGCAAGACAAGATACCCCTTGACTCAGCAATGAAATGAACAG
EST: gi|298178211|gb|HO023946.1|HO023946
EST:     AGTGAAGAGGCTACGAGTGTTGAAGAGTTCTGAGCTTTCTGCTTTTACCC                         TTGGGAGTAAGCAAGACAAGATACCCCTTGACTCAGCAATGAAATGAACAG
genomic: AGTGAAGAGGCTACGAGTGTTGAAGAGTTCTGAGCTTTCTGCTTTTACCCgtgagttgga ... ctattttcagTTGGGAGTAAGCAAGACAAGATACCCCTTGACTCAGCAATGAAATGAACAG
EST: gi|193487211|gb|FK450904.1|FK450904
EST:     AGTGAAGAGGCTACGAGTGTTGAAGAGTTCTGAGCTTTCTGCTTTTACCC                         TTGGGAGTAAGCAAGACAAGATACCCCTTGACTCAGCAATGAAATGAACAG
genomic: AGTGAAGAGGCTACGAGTGTTGAAGAGTTCTGAGCTTTCTGCTTTTACCCgtgagttgga ... ctattttcagTTGGGAGTAAGCAAGACAAGATACCCCTTGACTCAGCAATGAAATGAACAG
EST: gi|192309095|gb|FG999056.1|FG999056
EST:     AGTGAAGAGGCTACGAGTGTTGAAGAGTTCTGAGCTTTCTGCTTTTACCC                         TTGGGAGTAAGCAAGACAAGATACCCCTTGACTCAGCAATGAAATGAACAG
genomic: AGTGAAGAGGCTACGAGTGTTGAAGAGTTCTGAGCTTTCTGCTTTTACCCgtgagttgga ... ctattttcagTTGGGAGTAAGCAAGACAAGATACCCCTTGACTCAGCAATGAAATGAACAG
EST: gi|298178855|gb|HO024590.1|HO024590
EST:     AGTGAAGAGGCTACGAGTGTTGAAGAGTTCTGAGCTTTCTGCTTTTACCC                         TTGGGAGTAAGCAAGACAAGATACCCCTTGACTCAGCAATGAAATGAACAG
genomic: AGTGAAGAGGCTACGAGTGTTGAAGAGTTCTGAGCTTTCTGCTTTTACCCgtgagttgga ... ctattttcagTTGGGAGTAAGCAAGACAAGATACCCCTTGACTCAGCAATGAAATGAACAG
EST: gi|19269416|gb|BM885672.1|BM885672
EST:     AGTGAAGAGGCTACGAGTGTTGAAGAGTTCTGAGCTTTCTGCTTTTACCC                         TTGGGAGTAAGCAAGACAAGATACCCCTTGACTCAGCAATGAAATGAACAG
genomic: AGTGAAGAGGCTACGAGTGTTGAAGAGTTCTGAGCTTTCTGCTTTTACCCgtgagttgga ... ctattttcagTTGGGAGTAAGCAAGACAAGATACCCCTTGACTCAGCAATGAAATGAACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccctcgttttgttttaacttgtgattgaaaattgaagaaatgttcctattttcagTTGGGAGTAAGCAAGACAAGATACCCCTTGACTCAGCAATGAAATGAACAGCGGTTTGAGGTTTTGATCACCTGCTGAAAACTTGAAGACTCTTCCTAAT
           ttttaac  putative branch site (score: 2)
                                          ttcctattttc  putative PPT
      ttttgttttaactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagttggaatcttatttgatttacttgaagagttggaatgttgtttcttcttccctcgttttgttttaacttgtgattgaaaattgaagaaatgttcctattttcagTTGGGAGTAAGCAAGACAAGATACCCCTTGACTCAGCAATGAAATGAACAGCGGTTTGAGGTTTTGATCACCTGCTGAAAACTTGAAGACTCTTCCTAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA