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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...actaataccatagaaaattggaaattaccattgcatttttgtctagtttctccttgattttgagcaatcttattaattttcgttacaatttgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTTTCTTTTAGTTGTAAGGATGAAAGCAATGTGGTTAGTGGTGACTCTATCT

Basic information

species Glycine max
transcript GLYMA20G28720.4
intron # 4
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|192334698|gb|FK025231.1|FK025231
EST:     GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAG                         GCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
genomic: GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
EST: gi|151410504|gb|EV280319.1|EV280319
EST:     GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAG                         GCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
genomic: GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
EST: gi|6725409|gb|AW309808.1|AW309808
EST:     GTGCTGACTTAATAGCCTTTGAAACAATTTCAAATAAGCTGGAGGCACAG                         GCTTATGCTGAACTTCTTGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
genomic: GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
EST: gi|6848389|gb|AW350679.1|AW350679
EST:     GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAG                         GCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
genomic: GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
EST: gi|254342671|gb|GR858833.1|GR858833
EST:     GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAG                         GCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
genomic: GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
EST: gi|24135390|gb|BU925900.1|BU925900
EST:     GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAG                         GCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
genomic: GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
EST: gi|4396360|gb|AI495357.1|AI495357
EST:     GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAG                         GCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGA
genomic: GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGA
EST: gi|192323593|gb|FK017114.1|FK017114
EST:     GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAG                         GCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
genomic: GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
EST: gi|151401977|gb|EV271790.1|EV271790
EST:     GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAG                         GCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
genomic: GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
EST: gi|22541423|gb|BU091266.1|BU091266
EST:     GTGCTGACTTAATAGCCTTTGACACAATTCCAAATAAGCTGAAGGCACAG                         GCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
genomic: GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
EST: gi|16343199|gb|BI968794.1|BI968794
EST:     GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAG                         GCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
genomic: GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
EST: gi|192306172|gb|FG996814.1|FG996814
EST:     GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACGG                         GCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
genomic: GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
EST: gi|6566795|gb|AW234427.1|AW234427
EST:     TTTGAAACAATTCCAAATAAGCTGNAGGCACAG                         GCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
genomic: TTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
EST: gi|14990114|gb|BI315787.1|BI315787
EST:     GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAG                         GCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
genomic: GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
EST: gi|9986799|gb|BE660907.1|BE660907
EST:     GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAG                         GCTTATGCTGAACTTCT
genomic: GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCT
EST: gi|15814658|gb|BI786933.1|BI786933
EST:     GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAG                         GCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
genomic: GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
EST: gi|192306173|gb|FG996815.1|FG996815
EST:     GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACGG                         GCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
genomic: GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
EST: gi|151406337|gb|EV276152.1|EV276152
EST:     GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAG                         GCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
genomic: GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
EST: gi|22541388|gb|BU091231.1|BU091231
EST:     CCAAATAAGCTGAAGGC-CAG                         GCTTATGCT-AACTT-TCGAGGAAGAAGGCATAGAAACT-CTGCGGTGGTT
genomic: CCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGC-GTGGTT
EST: gi|58018094|gb|CX704836.1|CX704836
EST:     GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCTCAG                         GCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
genomic: GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
EST: gi|151407441|gb|EV277256.1|EV277256
EST:     GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAG                         GCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT
genomic: GTGCTGACTTAATAGCCTTTGAAACAATTCCAAATAAGCTGGAGGCACAGgtatttacta ... tgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttctccttgattttgagcaatcttattaattttcgttacaatttgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTTTCTTTTAGTTGTAAGGATGAAAGCAATGTGGTTAGTGGTGACTCTATCT
                    aatcttattaattttc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
actaataccatagaaaattggaaattaccattgcatttttgtctagtttctccttgattttgagcaatcttattaattttcgttacaatttgataaatagGCTTATGCTGAACTTCTCGAGGAAGAAGGCATAGAAACTCCTGCGTGGTTTTCTTTTAGTTGTAAGGATGAAAGCAATGTGGTTAGTGGTGACTCTATCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - -ccattgc