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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcatatgtttctgcttttggcactgtctccagtccttttattagttatttttgagtaatccctatttcatgcttccaaggctaaattttcttctcccatccctctcattttttagGCTCACAAAGCAAACCTGCAAATATTATTGGAGACAAGGCCGCAAATCTGGCTGGAGATGCATCTGTTGATAACAATTCAAGTGTTCATGCTCCGAAACC

Basic information

species Glycine max
transcript GLYMA10G38720.1
intron # 3
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|58014749|gb|CX701491.1|CX701491
EST:     AAAGGACTCTTGTCCCAGATGTCAGCAGGGTTTCTTTTGCTCAGATCATG                         GCTCACAAAGCAAACCTGCAAATATTATTGGAGACAAGGCCGCAAATCTGG
genomic: AAAGGACTCTTGTCCCAGATGTCAGCAGGGTTTCTTTTGCTCAGATCATGgtattcatat ... cattttttagGCTCACAAAGCAAACCTGCAAATATTATTGGAGACAAGGCCGCAAATCTGG
EST: gi|12691387|gb|BG157723.1|BG157723
EST:     AAAGGACTCTTGTCCCAGATGTCAGCAGGGTTTCTTTTGCTCAGATCATG                         GCTCACAAAGCAAACCTGCAAATATTATTGGAGACAAGGCCGCAAATCTGG
genomic: AAAGGACTCTTGTCCCAGATGTCAGCAGGGTTTCTTTTGCTCAGATCATGgtattcatat ... cattttttagGCTCACAAAGCAAACCTGCAAATATTATTGGAGACAAGGCCGCAAATCTGG
EST: gi|4396290|gb|AI495287.1|AI495287
EST:     AAAGGACTCTTGTCCCAGATGTCAGCAGGGTTTCTTTTGCTCAGATCATG                         GCTCACAAAGCAAACCTGCAAATATTATTGGAGACAAGGCCGCANATCTGG
genomic: AAAGGACTCTTGTCCCAGATGTCAGCAGGGTTTCTTTTGCTCAGATCATGgtattcatat ... cattttttagGCTCACAAAGCAAACCTGCAAATATTATTGGAGACAAGGCCGCAAATCTGG
EST: gi|298190522|gb|HO032643.1|HO032643
EST:     AAAGGACTCTTGTCCCAGATGTCAGCAGGGTTTCTTTTGCTCAGATCATG                         GCTCACAAAGCAAACCTGCAAATATTATT
genomic: AAAGGACTCTTGTCCCAGATGTCAGCAGGGTTTCTTTTGCTCAGATCATGgtattcatat ... cattttttagGCTCACAAAGCAAACCTGCAAATATTATT
EST: gi|151397809|gb|EV267682.1|EV267682
EST:     AAAGGACTCTTGTCCCAGATGTCAGCAGGGTTTCTTTTGCTCAGATCATG                         GCTCACAAAGCAAACCTGCAAATATTATTGGAGACAAGGCCGCAAATCTGG
genomic: AAAGGACTCTTGTCCCAGATGTCAGCAGGGTTTCTTTTGCTCAGATCATGgtattcatat ... cattttttagGCTCACAAAGCAAACCTGCAAATATTATTGGAGACAAGGCCGCAAATCTGG
EST: gi|192323948|gb|FK015684.1|FK015684
EST:     AAAGGACTCTTGTCCCAGATGTCAGCAGGGTTTCTTTTGCTCAGATCATG                         GCTCACAAAGCAAACCTGCAAATATTATTGGAGACAAGGCCGCAAATCTGG
genomic: AAAGGACTCTTGTCCCAGATGTCAGCAGGGTTTCTTTTGCTCAGATCATGgtattcatat ... cattttttagGCTCACAAAGCAAACCTGCAAATATTATTGGAGACAAGGCCGCAAATCTGG
EST: gi|193568085|gb|FK522952.1|FK522952
EST:     AAAGGACTCTTGTCCCAGATGTCNGCNGGGTTTCTTTTGCTCAGATCATG                         GCTCACAAAGCAAACCTGCAAATATTATTGGAGACAAGGCCGCAAATCTGG
genomic: AAAGGACTCTTGTCCCAGATGTCAGCAGGGTTTCTTTTGCTCAGATCATGgtattcatat ... cattttttagGCTCACAAAGCAAACCTGCAAATATTATTGGAGACAAGGCCGCAAATCTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctatttcatgcttccaaggctaaattttcttctcccatccctctcattttttagGCTCACAAAGCAAACCTGCAAATATTATTGGAGACAAGGCCGCAAATCTGGCTGGAGATGCATCTGTTGATAACAATTCAAGTGTTCATGCTCCGAAACC
                  ggctaaa  putative branch site (score: 3)
                         ttttcttctcccatcc  CT-rich tract
                     taaattttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattcatatgtttctgcttttggcactgtctccagtccttttattagttatttttgagtaatccctatttcatgcttccaaggctaaattttcttctcccatccctctcattttttagGCTCACAAAGCAAACCTGCAAATATTATTGGAGACAAGGCCGCAAATCTGGCTGGAGATGCATCTGTTGATAACAATTCAAGTGTTCATGCTCCGAAACC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG