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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgtcattgatttgttttcattaattattattattactatgtactattatatgaatctactgcaaaatgaagtaaatgttctcttaattattttccacccatgtgttatctgaaataatttaaacttttgcagCCATTATTCCCTGGCGAAAATGCAGTAGACCAGCTCGTACATATTATAAAG

Basic information

species Glycine max
transcript GLYMA15G09090.1
intron # 7
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|208248012|gb|GE044378.1|GE044378
EST:     TTGGTATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTTCTTTTGGGCCAG                         CCATTATTCCCTGGCGAAAATGCAGTAGACCAGCTCGTACATATTATAAAG
genomic: TTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTTCTTTTGGGCCAGgtttgtgtca ... acttttgcagCCATTATTCCCTGGCGAAAATGCAGTAGACCAGCTCGTACATATTATAAAG
EST: gi|254330723|gb|GR841988.1|GR841988
EST:     TTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTTCTTTTGGGCCAG                         CCATTATTCCCTGGCGAAAATGCAGTAGACCAGCTCGTACATATTATAAAG
genomic: TTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTTCTTTTGGGCCAGgtttgtgtca ... acttttgcagCCATTATTCCCTGGCGAAAATGCAGTAGACCAGCTCGTACATATTATAAAG
EST: gi|27446207|gb|CA953330.1|CA953330
EST:     TTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTTCTTTTGGGCCAG                         CCATTATTCCCTGGCGAAAATGCAGTAGACCAGCTCGT
genomic: TTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTTCTTTTGGGCCAGgtttgtgtca ... acttttgcagCCATTATTCCCTGGCGAAAATGCAGTAGACCAGCTCGT
EST: gi|208208469|gb|GE008460.1|GE008460
EST:     TTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTTCTTTTGGGCCAG                         CCATTATTCCCTGGCGAAAATGCAGTAG
genomic: TTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTTCTTTTGGGCCAGgtttgtgtca ... acttttgcagCCATTATTCCCTGGCGAAAATGCAGTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctcttaattattttccacccatgtgttatctgaaataatttaaacttttgcagCCATTATTCCCTGGCGAAAATGCAGTAGACCAGCTCGTACATATTATAAAG
   tcttaat  putative branch site (score: 3)
                                              cttttgc  putative PPT
                           ttatctgaaataattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgtgtcattgatttgttttcattaattattattattactatgtactattatatgaatctactgcaaaatgaagtaaatgttctcttaattattttccacccatgtgttatctgaaataatttaaacttttgcagCCATTATTCCCTGGCGAAAATGCAGTAGACCAGCTCGTACATATTATAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC