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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcttacctgcattacttttttaatctcttaacagaattgttaatccccccccccccccctttttctctaattcttatatgttttattctttgaaactttcccttgatttcagGGGTGGTCATGGCATTGGTGGAAGCATGCTCGTAG

Basic information

species Glycine max
transcript GLYMA15G17840.1
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|23728829|gb|BU762478.1|BU762478
EST:     TCTGGTAGTGATCTTGTTCCTGGGCCTGCTGCTGGAGTGTTTCCTTCAAG                         GGGTGGTCATGGCATTGGTGGAAGCATGCTCGTAG
genomic: TCTGGTAGTGATCTTGTTCCAGGGCCTGCTGCTGGAGTGTTTCCTTCAAGgtattcttac ... ttgatttcagGGGTGGTCATGGCATTGGTGGAAGCATGCTCGTAG
EST: gi|57574625|gb|CX547600.1|CX547600
EST:     TCTGGTAGTGATCTTGTTCCAGGGCCTGCTGCTGGAGTGTTTCCTTCAAG                         GGGTGGTCATGGCATTGGTGGAAGCATGCTCGTAG
genomic: TCTGGTAGTGATCTTGTTCCAGGGCCTGCTGCTGGAGTGTTTCCTTCAAGgtattcttac ... ttgatttcagGGGTGGTCATGGCATTGGTGGAAGCATGCTCGTAG
EST: gi|15204141|gb|BI426909.1|BI426909
EST:     TCTGGTAGTGATCTTGTTCCTGGGCCTGCTGCTGGAGTGTTTCCTTCAAG                         GGGTGGTCATGGCATTGGTGGAAGCATGCTCGTAG
genomic: TCTGGTAGTGATCTTGTTCCAGGGCCTGCTGCTGGAGTGTTTCCTTCAAGgtattcttac ... ttgatttcagGGGTGGTCATGGCATTGGTGGAAGCATGCTCGTAG
EST: gi|31308353|gb|CD393556.1|CD393556
EST:     TCTGGTAGTGATCTTGTTCCAGGGCCTGCTGCTGGAGTGTTTCCTTCAAG                         GGGTGGTCATGGCATTGGTGGAAGCATGCTCGTAG
genomic: TCTGGTAGTGATCTTGTTCCAGGGCCTGCTGCTGGAGTGTTTCCTTCAAGgtattcttac ... ttgatttcagGGGTGGTCATGGCATTGGTGGAAGCATGCTCGTAG
EST: gi|15813617|gb|BI785892.1|BI785892
EST:     TCTGGTAGTGATCTTGTTCCAGGGCCTGCTGCTGGAGTGTTTCCTTCAAG                         GGGTGGTCATGGCATTGGTGGAAGCATGCTCGTAG
genomic: TCTGGTAGTGATCTTGTTCCAGGGCCTGCTGCTGGAGTGTTTCCTTCAAGgtattcttac ... ttgatttcagGGGTGGTCATGGCATTGGTGGAAGCATGCTCGTAG
EST: gi|33389848|gb|CA853055.1|CA853055
EST:     TCTGGTAGTGATCTTGTTCCAGGGCCTGCTGCTGGAGTGTNTCCTTCAAG                         GGGTGGTCATGGCATTGGTGGAAGCATGCTCGTAG
genomic: TCTGGTAGTGATCTTGTTCCAGGGCCTGCTGCTGGAGTGTTTCCTTCAAGgtattcttac ... ttgatttcagGGGTGGTCATGGCATTGGTGGAAGCATGCTCGTAG
EST: gi|31310074|gb|CD395277.1|CD395277
EST:     TCTGGTAGTGATCTTGTTCCAGGGCCTGCTGCTGGAGTGTTTCCTTCAAG                         GGGTGGTCATGGCATTGGTGGAAGCATGCTCGTAG
genomic: TCTGGTAGTGATCTTGTTCCAGGGCCTGCTGCTGGAGTGTTTCCTTCAAGgtattcttac ... ttgatttcagGGGTGGTCATGGCATTGGTGGAAGCATGCTCGTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctttttctctaattcttatatgttttattctttgaaactttcccttgatttcagGGGTGGTCATGGCATTGGTGGAAGCATGCTCGTAG
                                      ctttcccttgatttc  CT-rich tract
          taattcttatatgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattcttacctgcattacttttttaatctcttaacagaattgttaatccccccccccccccctttttctctaattcttatatgttttattctttgaaactttcccttgatttcagGGGTGGTCATGGCATTGGTGGAAGCATGCTCGTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG