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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgtttggacaaatttgctttctcttgatcgctgcttactttttttattcaggatgttggtattatgatattacaaaatactgtttgcatatgcttaactcttgtctctatttttttttcagAGATGTCATTACCTGCTCTCCCAACATCTTCTCAGACACTAAAAAATAATGGCGAGTCCCATTTTGAAGTGTTTTATAAATTAATACTATTCTGGCTTTC

Basic information

species Glycine max
transcript GLYMA09G36130.1
intron # 5
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|207796620|gb|GD770782.1|GD770782
EST:     CTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTG                         AGATGTCATTACCTGCTCTCCCAACATCTTCTCAGACAC
genomic: CTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTGgtatgtgttt ... tttttttcagAGATGTCATTACCTGCTCTCCCAACATCTTCTCAGACAC
EST: gi|208340213|gb|GE135789.1|GE135789
EST:     CTGGCCTTCTTCATCATCTTCATTTGCATCTATGCCACGCTGTGCACCTG                         AGATGTCATTACCTGCTCTCCCAACATCTTCTCAGACACTAAAAAA
genomic: CTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTGgtatgtgttt ... tttttttcagAGATGTCATTACCTGCTCTCCCAACATCTTCTCAGACACTAAAAAA
EST: gi|208303795|gb|GE105264.1|GE105264
EST:     CTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTG                         AGATGTCATTACCTGCTCTCCCAACATCTTCTCAGACACTAAAAAGTAATG
genomic: CTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTGgtatgtgttt ... tttttttcagAGATGTCATTACCTGCTCTCCCAACATCTTCTCAGACACTAAAAAATAATG
EST: gi|193446954|gb|FK416215.1|FK416215
EST:     CTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTG                         AGATGTCATTACCTGCTCTCCCAACATCTTCTCAGACACTAAAAAATA
genomic: CTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTGgtatgtgttt ... tttttttcagAGATGTCATTACCTGCTCTCCCAACATCTTCTCAGACACTAAAAAATA
EST: gi|208308615|gb|GE104507.1|GE104507
EST:     CTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTG                         AGATGTCATTACCTGCTCTCCCAA
genomic: CTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTGgtatgtgttt ... tttttttcagAGATGTCATTACCTGCTCTCCCAA
EST: gi|207696743|gb|GD677004.1|GD677004
EST:     CTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTG                         AGATGTCATTACCTGCTCTCCCAACATCTTCTCAGACACTAAAAAATAATG
genomic: CTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTGgtatgtgttt ... tttttttcagAGATGTCATTACCTGCTCTCCCAACATCTTCTCAGACACTAAAAAATAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atattacaaaatactgtttgcatatgcttaactcttgtctctatttttttttcagAGATGTCATTACCTGCTCTCCCAACATCTTCTCAGACACTAAAAAATAATGGCGAGTCCCATTTTGAAGTGTTTTATAAATTAATACTATTCTGGCTTTC
                         gcttaac  putative branch site (score: 3)
                          cttaactcttgtctct  CT-rich tract
                                     tctctattttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtgtttggacaaatttgctttctcttgatcgctgcttactttttttattcaggatgttggtattatgatattacaaaatactgtttgcatatgcttaactcttgtctctatttttttttcagAGATGTCATTACCTGCTCTCCCAACATCTTCTCAGACACTAAAAAATAATGGCGAGTCCCATTTTGAAGTGTTTTATAAATTAATACTATTCTGGCTTTC

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