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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcatacttcatacactttataatataatttattattatttttgcttgatggtttgttcattcctcttaagtttcctaatattattcttcttttttctttcctgcttactaatttaatttccattcagCTGGTGAATATACTCCCCAAACCATGTAATAGAAGCAACAACAAGGACTCACATGGAAGGGATGTGCACGGGGAGAGTGAAACACTGAGGATGCTAAGTC

Basic information

species Glycine max
transcript GLYMA17G18640.1
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|31561238|gb|CD487076.1|CD487076
EST:     AGCACCTGCCATCTGAGTCTAATTGGCGTAATGGGGGACACAAGCCTAAG                         CTGGTGAATATACTCCCCAAACCACGTAATAGAAGCAACAACAAGGACTCA
genomic: AGCACCTGCCATCTGAGTCTAATTGGCGTAATGGGGGAAACAAGCCTAAGgttcatactt ... ttccattcagCTGGTGAATATACTCCCCAAACCATGTAATAGAAGCAACAACAAGGACTCA
EST: gi|193303466|gb|FK271610.1|FK271610
EST:     AGTCTAATTGGCGTAAT-GGGGAAACAAGCCTAAG                         CTGGTGAATATACTCCCCAAACCATGTAATAGAAGCAACAACAAGGACTCA
genomic: AGTCTAATTGGCGTAATGGGGGAAACAAGCCTAAGgttcatactt ... ttccattcagCTGGTGAATATACTCCCCAAACCATGTAATAGAAGCAACAACAAGGACTCA
EST: gi|16346744|gb|BI972339.1|BI972339
EST:     AGCACCTGCCATCTGAGTCTAATTGGCGTAATGGGGGAAACAAGCCTAAG                         CTGGTGAATATACTCCCCAAACCATGTAATAGAAGCAACAACAAGGACTCA
genomic: AGCACCTGCCATCTGAGTCTAATTGGCGTAATGGGGGAAACAAGCCTAAGgttcatactt ... ttccattcagCTGGTGAATATACTCCCCAAACCATGTAATAGAAGCAACAACAAGGACTCA
EST: gi|193597433|gb|FK550547.1|FK550547
EST:     TCTAATTGGCGTAATGGGGGAAGCAAGCCTAAG                         CTGGTGAATATACTCCCCAAACCATGTAATAGAAGCAACAACAAGGACTCA
genomic: TCTAATTGGCGTAATGGGGGAAACAAGCCTAAGgttcatactt ... ttccattcagCTGGTGAATATACTCCCCAAACCATGTAATAGAAGCAACAACAAGGACTCA
EST: gi|31305874|gb|CD391077.1|CD391077
EST:     AGCACCTGCCATCTGAGTCTAATTGGCGTAATGGGGGAAACAAGCCTAAG                         CTGGTGAATATACTCCCCAAACCATGTAATAGAAGCAACAACAAGGACTCA
genomic: AGCACCTGCCATCTGAGTCTAATTGGCGTAATGGGGGAAACAAGCCTAAGgttcatactt ... ttccattcagCTGGTGAATATACTCCCCAAACCATGTAATAGAAGCAACAACAAGGACTCA
EST: gi|193422061|gb|FK386734.1|FK386734
EST:     AGCACCTGCCATCTGAGTCTAATTGGCGTAATGGGGGAAACAAGCCTAAG                         CTGGTGAATATACTCCCCAAACCATGTAATAGAAGCAACAACAAGGACTCA
genomic: AGCACCTGCCATCTGAGTCTAATTGGCGTAATGGGGGAAACAAGCCTAAGgttcatactt ... ttccattcagCTGGTGAATATACTCCCCAAACCATGTAATAGAAGCAACAACAAGGACTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcctaatattattcttcttttttctttcctgcttactaatttaatttccattcagCTGGTGAATATACTCCCCAAACCATGTAATAGAAGCAACAACAAGGACTCACATGGAAGGGATGTGCACGGGGAGAGTGAAACACTGAGGATGCTAAGTC
                                            tttccattc  CT-rich tract
     atattattcttctttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcatacttcatacactttataatataatttattattatttttgcttgatggtttgttcattcctcttaagtttcctaatattattcttcttttttctttcctgcttactaatttaatttccattcagCTGGTGAATATACTCCCCAAACCATGTAATAGAAGCAACAACAAGGACTCACATGGAAGGGATGTGCACGGGGAGAGTGAAACACTGAGGATGCTAAGTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG