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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcttatgttttgaatggaaactgttttagtctaatctaaatggggatactaatttctaacaagttgtggttttggctccctttcttgatcagGTGAACAGCTTCTTCAATTAGAACGCGAGAAAGGAATTGTCATCAGATTCATGATTGGTCACAG

Basic information

species Glycine max
transcript GLYMA13G02420.1
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|208155480|gb|GD955525.1|GD955525
EST:     CAGTAGCAGGAAGCGGCGTGATTCGGTTAGAGAGACTTGGATGCCTCAAG                         GTGAACAGCTTCTTCAATTAGAACGCGAGAAAGGAATTGTCAT
genomic: CAGTAGCAGGAAGCGGCGTGATTCGGTTAGAGAGACTTGGATGCCTCAAGgtatcttatg ... tcttgatcagGTGAACAGCTTCTTCAATTAGAACGCGAGAAAGGAATTGTCAT
EST: gi|151401991|gb|EV271804.1|EV271804
EST:     CAGTAGCAGGAAGCGGCGTGATTCGGTTAGAGAGACTTGGATGCCTCAAG                         GTGAACAGCTTCTTCAATTAGAACGCGAGAAAGGAATTGTCATCAGATTCA
genomic: CAGTAGCAGGAAGCGGCGTGATTCGGTTAGAGAGACTTGGATGCCTCAAGgtatcttatg ... tcttgatcagGTGAACAGCTTCTTCAATTAGAACGCGAGAAAGGAATTGTCATCAGATTCA
EST: gi|192296211|gb|FG989047.1|FG989047
EST:     CAGTAGCAGGAAGCGGCGTGATTCGGTTAGAGAGACTTGGATGCCTCAAG                         GTGAACAGCTTCTTCAATTAGAACGCGAGAAAGGAATTGTCATCGGATTCA
genomic: CAGTAGCAGGAAGCGGCGTGATTCGGTTAGAGAGACTTGGATGCCTCAAGgtatcttatg ... tcttgatcagGTGAACAGCTTCTTCAATTAGAACGCGAGAAAGGAATTGTCATCAGATTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatggggatactaatttctaacaagttgtggttttggctccctttcttgatcagGTGAACAGCTTCTTCAATTAGAACGCGAGAAAGGAATTGTCATCAGATTCATGATTGGTCACAG
                ttctaac  putative branch site (score: 1)
                                ttttggctccctttct  putative PPT
        atactaatttctaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatcttatgttttgaatggaaactgttttagtctaatctaaatggggatactaatttctaacaagttgtggttttggctccctttcttgatcagGTGAACAGCTTCTTCAATTAGAACGCGAGAAAGGAATTGTCATCAGATTCATGATTGGTCACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA