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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagattttctcatggctttgattctctgatgcttcctcttaaagtaaaccctagctctctcccctcaatcaaaaagaaaaaaagaaaaataaaatcatgattaatttgttttgccttttcagGCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAAGGATATGCAG

Basic information

species Glycine max
transcript GLYMA13G04940.1
intron # 6
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|192298017|gb|FG993251.1|FG993251
EST:     ATTTGTCTGATGTTGAGAAGGGCGGGGAAACAATTTTTTCCAATGCCAAG                         GCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAA
genomic: ATTTGTCTGATGTTGAGAAGGGCGGGGAAACAATTTTTCCCAATGCCAAGgtaaagattt ... gccttttcagGCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAA
EST: gi|192298241|gb|FG991717.1|FG991717
EST:     ATTTGTCTGATGTTGAGAAGGGCGGGGAAACAATTTTTCCCAATGCCAAG                         GCAAAGTTGTTGCAGCCAAA-GATGAGAGCTGGTCTGAATGTGCTCACAAA
genomic: ATTTGTCTGATGTTGAGAAGGGCGGGGAAACAATTTTTCCCAATGCCAAGgtaaagattt ... gccttttcagGCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAA
EST: gi|192298016|gb|FG993250.1|FG993250
EST:     ATTTGTCTGATGTTGAGAAGGGCGGGGAAACAATTTTTTCCAATGCCAAG                         GCAAAGTTGTTGCAGCCAAA-GATGAGAGCTGGTCTGAATGTGCTCACAAA
genomic: ATTTGTCTGATGTTGAGAAGGGCGGGGAAACAATTTTTCCCAATGCCAAGgtaaagattt ... gccttttcagGCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAA
EST: gi|207827572|gb|GD799563.1|GD799563
EST:     AACAA-TTTTCCCAATGCCAAG                         GCAAAGTTGTTGCAGCC-AAAGATGAGAGCTGGTCTGAATGTGCTCACAAA
genomic: AACAATTTTTCCCAATGCCAAGgtaaagattt ... gccttttcagGCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAA
EST: gi|151394021|gb|EV263892.1|EV263892
EST:     ATTTGTCTGATGTTGAGAAGGGCGGGGAAACAATTTTTCCCAATGCCAAG                         GCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAA
genomic: ATTTGTCTGATGTTGAGAAGGGCGGGGAAACAATTTTTCCCAATGCCAAGgtaaagattt ... gccttttcagGCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAA
EST: gi|254330721|gb|GR841986.1|GR841986
EST:     ATTTGTCTGATGTTGAGAAGGGCGGGGAAACAATTTTTCCCAATGCCAAG                         GCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAA
genomic: ATTTGTCTGATGTTGAGAAGGGCGGGGAAACAATTTTTCCCAATGCCAAGgtaaagattt ... gccttttcagGCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAA
EST: gi|192330838|gb|FK021611.1|FK021611
EST:     ATTTGTCTGATGTTGAGAAGGGCGGGGAAACAATTTTTCCCAATGCCAAG                         GCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAA
genomic: ATTTGTCTGATGTTGAGAAGGGCGGGGAAACAATTTTTCCCAATGCCAAGgtaaagattt ... gccttttcagGCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAA
EST: gi|151395404|gb|EV265281.1|EV265281
EST:     ATTTGTCTGATGTTGAGAAGGGCGGGGAAACAATTTTTCCCAATGCCAAG                         GCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAA
genomic: ATTTGTCTGATGTTGAGAAGGGCGGGGAAACAATTTTTCCCAATGCCAAGgtaaagattt ... gccttttcagGCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAA
EST: gi|120530553|gb|EH258686.1|EH258686
EST:     ATTTGTCTGATGTTGAGAAGGGCGGGGAAACAATTTTTCCCAATGCCAAG                         GCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAA
genomic: ATTTGTCTGATGTTGAGAAGGGCGGGGAAACAATTTTTCCCAATGCCAAGgtaaagattt ... gccttttcagGCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAA
EST: gi|213611820|gb|DB958886.1|DB958886
EST:     ATTTGTCTGATGTTGAGAAGGGCGGGGAAACAATTTTTCCCAATGCCGAG                         GCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAA
genomic: ATTTGTCTGATGTTGAGAAGGGCGGGGAAACAATTTTTCCCAATGCCAAGgtaaagattt ... gccttttcagGCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcaaaaagaaaaaaagaaaaataaaatcatgattaatttgttttgccttttcagGCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAAGGATATGCAG
                               gattaat  putative branch site (score: 3)
                                     tttgttttgccttttc  CT-rich tract
     aaagaaaaaaagaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagattttctcatggctttgattctctgatgcttcctcttaaagtaaaccctagctctctcccctcaatcaaaaagaaaaaaagaaaaataaaatcatgattaatttgttttgccttttcagGCAAAGTTGTTGCAGCCAAAAGATGAGAGCTGGTCTGAATGTGCTCACAAAGGATATGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT