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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactggatgctaaattataccacttaatagttcatgttgatgattccgttgtttaattctacaaatctgatcgcaatttggtgattttggcatgaatatatatgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAAATTGCAAGTTTAAATGGTGGGGTGAAGATATCTGAACTGTTGAAGTATC

Basic information

species Glycine max
transcript GLYMA14G02500.1
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|10234213|gb|BE803101.1|BE803101
EST:     GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAG                         GCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
genomic: GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAGgtactggatg ... atatatgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
EST: gi|18040453|gb|BM308747.1|BM308747
EST:     GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAG                         GCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
genomic: GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAGgtactggatg ... atatatgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
EST: gi|308222718|gb|HO760628.1|HO760628
EST:     GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAG                         GCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
genomic: GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAGgtactggatg ... atatatgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
EST: gi|19346233|gb|BM891113.1|BM891113
EST:     GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAG                         GCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
genomic: GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAGgtactggatg ... atatatgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
EST: gi|4303996|gb|AI443556.1|AI443556
EST:     CAACCATTAACCATCTTCACTTCCAG                         GCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
genomic: CAACCATTAACCATCTTCACTTCCAGgtactggatg ... atatatgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
EST: gi|13789523|gb|BG652114.1|BG652114
EST:     GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAG                         GCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTNNNNNN
genomic: GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAGgtactggatg ... atatatgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
EST: gi|11687442|gb|BF595118.1|BF595118
EST:     GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAG                         GCTTATTATATGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
genomic: GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAGgtactggatg ... atatatgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
EST: gi|21994685|gb|BQ786213.1|BQ786213
EST:     GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAG                         GCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
genomic: GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAGgtactggatg ... atatatgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
EST: gi|19346232|gb|BM891112.1|BM891112
EST:     GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAG                         GCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
genomic: GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAGgtactggatg ... atatatgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
EST: gi|151406689|gb|EV276504.1|EV276504
EST:     TTACAACAGTTTTGGGTACTTTTGCAACCATTAACCATCTTCACTTCCAG                         GCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAAGCCCCCACTAAGAAA
genomic: TTACAACAGTTT-GGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAGgtactggatg ... atatatgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
EST: gi|7686123|gb|AW756771.1|AW756771
EST:     GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAG                         GCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
genomic: GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAGgtactggatg ... atatatgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
EST: gi|9204579|gb|BE330803.1|BE330803
EST:     GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAG                         GCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
genomic: GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAGgtactggatg ... atatatgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
EST: gi|9203876|gb|BE330100.1|BE330100
EST:     GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAG                         GCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
genomic: GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAGgtactggatg ... atatatgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
EST: gi|10234196|gb|BE803084.1|BE803084
EST:     GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAG                         GCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA
genomic: GTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAGgtactggatg ... atatatgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaattctacaaatctgatcgcaatttggtgattttggcatgaatatatatgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAAATTGCAAGTTTAAATGGTGGGGTGAAGATATCTGAACTGTTGAAGTATC
            atctgat  putative branch site (score: 4)
                                       atgaatatatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactggatgctaaattataccacttaatagttcatgttgatgattccgttgtttaattctacaaatctgatcgcaatttggtgattttggcatgaatatatatgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAAAATTGCAAGTTTAAATGGTGGGGTGAAGATATCTGAACTGTTGAAGTATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG