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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaacactttttttttgttaaaccacaatgtgctataagaattcgtatatataattctagtttagtatcatcaaattgataacttaaaatttgtcttatagAAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGGCGTGATGCTGGGGCTTCCCTTTTTGGTGGCTGCTGCAGGACTACTCCTA

Basic information

species Glycine max
transcript GLYMA20G28720.3
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|16343199|gb|BI968794.1|BI968794
EST:     TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTG                         AAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
genomic: TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTGgtgagttctg ... tgtcttatagAAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
EST: gi|14990114|gb|BI315787.1|BI315787
EST:     TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTG                         AAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
genomic: TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTGgtgagttctg ... tgtcttatagAAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
EST: gi|192306173|gb|FG996815.1|FG996815
EST:     TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTG                         AAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
genomic: TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTGgtgagttctg ... tgtcttatagAAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
EST: gi|6848389|gb|AW350679.1|AW350679
EST:     TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTG                         AAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
genomic: TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTGgtgagttctg ... tgtcttatagAAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
EST: gi|151407441|gb|EV277256.1|EV277256
EST:     TATATCCCAGCAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTG                         AAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAG-CAAGTGG
genomic: TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTGgtgagttctg ... tgtcttatagAAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
EST: gi|22541388|gb|BU091231.1|BU091231
EST:     TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTG                         AAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
genomic: TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTGgtgagttctg ... tgtcttatagAAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
EST: gi|22541423|gb|BU091266.1|BU091266
EST:     TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTG                         AAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
genomic: TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTGgtgagttctg ... tgtcttatagAAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
EST: gi|192334698|gb|FK025231.1|FK025231
EST:     TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTG                         AAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
genomic: TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTGgtgagttctg ... tgtcttatagAAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
EST: gi|6566795|gb|AW234427.1|AW234427
EST:     TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTG                         AAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
genomic: TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTGgtgagttctg ... tgtcttatagAAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
EST: gi|151406337|gb|EV276152.1|EV276152
EST:     TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTG                         AAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
genomic: TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTGgtgagttctg ... tgtcttatagAAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
EST: gi|58018094|gb|CX704836.1|CX704836
EST:     TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTG                         AAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
genomic: TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTGgtgagttctg ... tgtcttatagAAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG
EST: gi|192334699|gb|FK025232.1|FK025232
EST:     TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTG                         AAATCAAGTGGGGCAGCAGAGCATGATTTTGTTTCCTACATAGGCAAGTGG
genomic: TATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTGgtgagttctg ... tgtcttatagAAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatataattctagtttagtatcatcaaattgataacttaaaatttgtcttatagAAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGGCGTGATGCTGGGGCTTCCCTTTTTGGTGGCTGCTGCAGGACTACTCCTA
                              tgataac  putative branch site (score: 2)
                                           tttgtctt  putative PPT
                          aaattgataacttaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaacactttttttttgttaaaccacaatgtgctataagaattcgtatatataattctagtttagtatcatcaaattgataacttaaaatttgtcttatagAAATCAAGTGGGGCAGCAGAGCATGATTTTGTCTCCTACATAGGCAAGTGGCGTGATGCTGGGGCTTCCCTTTTTGGTGGCTGCTGCAGGACTACTCCTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG