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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctcgctttttcttttgccctaaatctttcttccatttccctcaattttgggtacaagaggaatgaatgtttgttgtctcacgatttgcttttcgaactttcagGTTCTGTGCGATGTGGAATGCGGCAAGGAGTTCATTTTGTGCGAATACAATAGAGATGCCGACTCTTACAG

Basic information

species Glycine max
transcript GLYMA20G31170.1
intron # 1
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|9901313|gb|BE610281.1|BE610281
EST:     TGCCTGACAACTCCTCCGATCTCCTCTCTCAAGTCGATCAGCCCCTCCAG                         GTTCTGTGCGATGTGGAATGCGGCAAGGAGTTCATTTTGTGCGAATACAAT
genomic: TGCCTGACAACTCCTCCGATCTCCTCTCTCAAGTCGATCAGCCCCTCCAGgtctcgcttt ... gaactttcagGTTCTGTGCGATGTGGAATGCGGCAAGGAGTTCATTTTGTGCGAATACAAT
EST: gi|193636239|gb|FK580762.1|FK580762
EST:     TGCCTGACAACTCCTCCGATCTCCTCTCTCAAGTCGATCAGCCCCTCCAG                         GTTCTGTGCGATGTGGAATGCGGCAAGGAGTTCATTTTGTGCGAATACAAT
genomic: TGCCTGACAACTCCTCCGATCTCCTCTCTCAAGTCGATCAGCCCCTCCAGgtctcgcttt ... gaactttcagGTTCTGTGCGATGTGGAATGCGGCAAGGAGTTCATTTTGTGCGAATACAAT
EST: gi|192303571|gb|FG995949.1|FG995949
EST:     TGCCTGACAACTCCTCCGATCTCCTCTCTCAAGTCGATCAGCCCCTCCAG                         GTTCTGTGCGATGTGGAATGCGGCAAGGAGTTCATTTTGTGCGAATACAAT
genomic: TGCCTGACAACTCCTCCGATCTCCTCTCTCAAGTCGATCAGCCCCTCCAGgtctcgcttt ... gaactttcagGTTCTGTGCGATGTGGAATGCGGCAAGGAGTTCATTTTGTGCGAATACAAT
EST: gi|193351969|gb|FK318798.1|FK318798
EST:     GCCTGACAACTCCTCCGATCTCCTCTCTCAAAGTCGATCAGCCC-TCCAG                         GTTCTGTGCGATGTGGAATGCGGCAAGGAGTTCATTTTG
genomic: GCCTGACAACTCCTCCGATCTCCTCTCTCAA-GTCGATCAGCCCCTCCAGgtctcgcttt ... gaactttcagGTTCTGTGCGATGTGGAATGCGGCAAGGAGTTCATTTTG
EST: gi|192299554|gb|FG987715.1|FG987715
EST:     TGCCTGACAACTCCTCCGATCTCCTCTCTCAAGTCGATCAGCCCCTCCAG                         GTTCTGTGCGATGTGGAATGCGGCAAGGAGTTCATTTTGTGCGAATACAAT
genomic: TGCCTGACAACTCCTCCGATCTCCTCTCTCAAGTCGATCAGCCCCTCCAGgtctcgcttt ... gaactttcagGTTCTGTGCGATGTGGAATGCGGCAAGGAGTTCATTTTGTGCGAATACAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggtacaagaggaatgaatgtttgttgtctcacgatttgcttttcgaactttcagGTTCTGTGCGATGTGGAATGCGGCAAGGAGTTCATTTTGTGCGAATACAATAGAGATGCCGACTCTTACAG
                          gtctcac  putative branch site (score: 3)
 cttttcg  putative PPT
 aatgaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctcgctttttcttttgccctaaatctttcttccatttccctcaattttgggtacaagaggaatgaatgtttgttgtctcacgatttgcttttcgaactttcagGTTCTGTGCGATGTGGAATGCGGCAAGGAGTTCATTTTGTGCGAATACAATAGAGATGCCGACTCTTACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG