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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatatccatttttctactcttcttaaataacaaggattggtgaacagattatgtgtgcattgtcagtatgttctgtctaacttttatttatttattgcagGATATATCCAATTTTCCGCCATTTCAACCTGGGTGGTTAAATAGAGTTGATGATGGATTGAGAACAACATTATGGGATCAATCTGGAAAAACCTGGCAAT

Basic information

species Glycine max
transcript GLYMA12G09100.1
intron # 8
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|8670367|gb|BE191474.1|BE191474
EST:     AGCAGATGGGGAACTTTGATGTTGAAACTCTCTTCAAACAATCCGAAATG                         GATATATCCAATTTTCCGCCATTTCAACCTGGGTGGTTAAATAGAGTTGAT
genomic: AGCAGATGGGGAACTTTGATGTTGAAACTCTCTTCAAACAATCCGAAATGgcaagtaatg ... tttattgcagGATATATCCAATTTTCCGCCATTTCAACCTGGGTGGTTAAATAGAGTTGAT
EST: gi|17519519|gb|BM188561.1|BM188561
EST:     AGCAGATGGGGAACTTTGATGTTGAAACTCTCTTCAAACAATCCGAAATG                         GATATATCCAATTTTCCGCCATTTCAACCTGGGTGGTTAAATAGAGTTGAT
genomic: AGCAGATGGGGAACTTTGATGTTGAAACTCTCTTCAAACAATCCGAAATGgcaagtaatg ... tttattgcagGATATATCCAATTTTCCGCCATTTCAACCTGGGTGGTTAAATAGAGTTGAT
EST: gi|51335983|gb|CO979849.1|CO979849
EST:     AGCAGATGGGGAACTTTGATGTTGAAACTCTCTTCAAACAATCCGAAATG                         GATATATCCAATTTTCCGCCATTTCAACCTGGGTGGTTAAATAGAGTTGAT
genomic: AGCAGATGGGGAACTTTGATGTTGAAACTCTCTTCAAACAATCCGAAATGgcaagtaatg ... tttattgcagGATATATCCAATTTTCCGCCATTTCAACCTGGGTGGTTAAATAGAGTTGAT
EST: gi|120497211|gb|EH225378.1|EH225378
EST:     AGCAGATGGGGAACTTTGATGTTGAAACTCTCTTCAAACAATCCGAAATG                         GATATATCCAATTTTCCGCCATTTCAACCTGGGTGGTTAAATAGAGTTGAT
genomic: AGCAGATGGGGAACTTTGATGTTGAAACTCTCTTCAAACAATCCGAAATGgcaagtaatg ... tttattgcagGATATATCCAATTTTCCGCCATTTCAACCTGGGTGGTTAAATAGAGTTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agattatgtgtgcattgtcagtatgttctgtctaacttttatttatttattgcagGATATATCCAATTTTCCGCCATTTCAACCTGGGTGGTTAAATAGAGTTGATGATGGATTGAGAACAACATTATGGGATCAATCTGGAAAAACCTGGCAAT
                             gtctaac  putative branch site (score: 2)
                                         tttattt  putative PPT
                            tgtctaacttttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gatatccatttttctactcttcttaaataacaaggattggtgaacagattatgtgtgcattgtcagtatgttctgtctaacttttatttatttattgcagGATATATCCAATTTTCCGCCATTTCAACCTGGGTGGTTAAATAGAGTTGATGATGGATTGAGAACAACATTATGGGATCAATCTGGAAAAACCTGGCAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - ataacaag
- - - - - - - - - - - - - - - - - -attggtg
- - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctgtc