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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgttattactgtaactgtacttccgtttccgtttttttttttgtctgttaattattacgccgattttatgcttattcttcgggattttccgagcagGATGATTATGCCGCCGATGACGATGAATACGAGGAAAGGTTCAAAAAAGAGACTCACGTTCTTTTCTTTTTAGCTAC

Basic information

species Glycine max
transcript GLYMA17G07050.2
intron # 2
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|192316747|gb|FK006450.1|FK006450
EST:     AAGAGGCCAAAGCGCGATACGAGAAGGCCACGTTCAGAGTCGTCGATATG                         GATGATTATGCCGCCGATGACGATGAATACGAGGAAAGGTTCAAAAAAGAG
genomic: AAGAGGCCAAAGCGCGATACGAGAAGGCCACGTTCAGAGTCGTCGATATGgtactgttat ... ttccgagcagGATGATTATGCCGCCGATGACGATGAATACGAGGAAAGGTTCAAAAAAGAG
EST: gi|254346950|gb|GR856672.1|GR856672
EST:     AAGAGGCCAAAGCGCGATACGAGAAGGCCACGTTCAGAGTCGTCGATATG                         GATGATTATGCCGCCGATGACGATGAATACGAGGAAAGGTTCAAAAAAGAG
genomic: AAGAGGCCAAAGCGCGATACGAGAAGGCCACGTTCAGAGTCGTCGATATGgtactgttat ... ttccgagcagGATGATTATGCCGCCGATGACGATGAATACGAGGAAAGGTTCAAAAAAGAG
EST: gi|192316746|gb|FK006449.1|FK006449
EST:     AAGAGGCCAAAGCGCGATACGAGAAGGCCACGTTCAGAGTCGTCGATATG                         GATGATTATGCCGCCGATGACGATGAATACGAGGAAAGGTTCAAAAAAGAG
genomic: AAGAGGCCAAAGCGCGATACGAGAAGGCCACGTTCAGAGTCGTCGATATGgtactgttat ... ttccgagcagGATGATTATGCCGCCGATGACGATGAATACGAGGAAAGGTTCAAAAAAGAG
EST: gi|213615154|gb|DB963366.1|DB963366
EST:     AAGAGGCCAAAGCGCGATACGAGAAGGCCACGTTCAGAGTCGTCGATATG                         GATGATTATGCCGCCGATGACGATGAATACGAGGAAAGGTTCAAAAAAGAG
genomic: AAGAGGCCAAAGCGCGATACGAGAAGGCCACGTTCAGAGTCGTCGATATGgtactgttat ... ttccgagcagGATGATTATGCCGCCGATGACGATGAATACGAGGAAAGGTTCAAAAAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtctgttaattattacgccgattttatgcttattcttcgggattttccgagcagGATGATTATGCCGCCGATGACGATGAATACGAGGAAAGGTTCAAAAAAGAGACTCACGTTCTTTTCTTTTTAGCTAC
    tgttaat  putative branch site (score: 3)
                                           ttttcc  putative PPT
                     attttatgcttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactgttattactgtaactgtacttccgtttccgtttttttttttgtctgttaattattacgccgattttatgcttattcttcgggattttccgagcagGATGATTATGCCGCCGATGACGATGAATACGAGGAAAGGTTCAAAAAAGAGACTCACGTTCTTTTCTTTTTAGCTAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA