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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtcacattggttattttcagaacttgttcatgtttaaatgtcctcaagaactagggtgaagatgaagatgtgcaattgttatttattttgtaagatgcactttacgcattgcatctttactaacttcaggatttgaatttcccttgtttagAACTGGTCTAAAACTTCCTTGCTATCTAAGTTGAAAGATCTTGCTGAGAGAAGAAAGCTAGAAGACTTGACAATCGGCCCAGTCCTCACA

Basic information

species Glycine max
transcript GLYMA05G01300.2
intron # 11
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|16995634|gb|BM085006.1|BM085006
EST:     CATGCAGTGGTCAGAAATGCTCAGCACAATCATTGTTATTTATGCATGAG                         AACTGGCCTAAAACTTCCTTGCTATCTAAGTTGAAAGATCTTGCTGAGAGA
genomic: CATGCAGTGGTCAGAAATGCTCAGCACAATCATTGTTATTTATGCATGAGgtctgtcaca ... ccttgtttagAACTGGTCTAAAACTTCCTTGCTATCTAAGTTGAAAGATCTTGCTGAGAGA
EST: gi|9898827|gb|BE607795.1|BE607795
EST:     ATTTATGCATGAG                         AACTGGTCTAAAACTTCCTTGCTATCTAAGTTGAAAGATCTTGCTGAGAGA
genomic: ATTTATGCATGAGgtctgtcaca ... ccttgtttagAACTGGTCTAAAACTTCCTTGCTATCTAAGTTGAAAGATCTTGCTGAGAGA
EST: gi|8826963|gb|BE210693.1|BE210693
EST:     CATGCAGTGGTCAGAAATGCTCAGCACAATCATTGTTATTTATGCATGAG                         AACTGGTCTAAAACTTCCTTGCTATCTAAGTTGAAAGATCTTGCTGAGAGA
genomic: CATGCAGTGGTCAGAAATGCTCAGCACAATCATTGTTATTTATGCATGAGgtctgtcaca ... ccttgtttagAACTGGTCTAAAACTTCCTTGCTATCTAAGTTGAAAGATCTTGCTGAGAGA
EST: gi|193551899|gb|FK507298.1|FK507298
EST:     CACAATCATTGTTATTTATGCATGAG                         AACTGGTCTAAAACTTCCTTGCTATCTAAGTTGAAAGATCTTGCTGAGAGA
genomic: CACAATCATTGTTATTTATGCATGAGgtctgtcaca ... ccttgtttagAACTGGTCTAAAACTTCCTTGCTATCTAAGTTGAAAGATCTTGCTGAGAGA
EST: gi|8827894|gb|BE211624.1|BE211624
EST:     CATGCAGTGGTCAGAAATGCTCAGCACAATCATTGTTATTTATGCATGAG                         AACTGGTCTAAAACTTCCTTGCTATCTAAGTTGAAAGATCTTGCTGAGAGA
genomic: CATGCAGTGGTCAGAAATGCTCAGCACAATCATTGTTATTTATGCATGAGgtctgtcaca ... ccttgtttagAACTGGTCTAAAACTTCCTTGCTATCTAAGTTGAAAGATCTTGCTGAGAGA
EST: gi|5770753|gb|AI973927.1|AI973927
EST:     CATGCAGTGGTCAGAAATGCTCAGCACAATCATTGTTATTTATGCATGAG                         AACTGGTCTAAAACTTCCTTGCTATCTAAGTTGAAAGATCTTGCTGAGAGA
genomic: CATGCAGTGGTCAGAAATGCTCAGCACAATCATTGTTATTTATGCATGAGgtctgtcaca ... ccttgtttagAACTGGTCTAAAACTTCCTTGCTATCTAAGTTGAAAGATCTTGCTGAGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcactttacgcattgcatctttactaacttcaggatttgaatttcccttgtttagAACTGGTCTAAAACTTCCTTGCTATCTAAGTTGAAAGATCTTGCTGAGAGAAGAAAGCTAGAAGACTTGACAATCGGCCCAGTCCTCACA
                     tactaac  putative branch site (score: 0)
                                         tttcccttgttt  putative PPT
                                  atttgaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctgtcacattggttattttcagaacttgttcatgtttaaatgtcctcaagaactagggtgaagatgaagatgtgcaattgttatttattttgtaagatgcactttacgcattgcatctttactaacttcaggatttgaatttcccttgtttagAACTGGTCTAAAACTTCCTTGCTATCTAAGTTGAAAGATCTTGCTGAGAGAAGAAAGCTAGAAGACTTGACAATCGGCCCAGTCCTCACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA