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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaattccatgaaaattgaattttgctcgtcactaattacattataaactgtttcatgtttcacacatgttcgtacttgttcgttgtttatcatatcgaagATGATGGTCACCTATTCACTTGGGGGTGGAACAAATATGGTCAG

Basic information

species Glycine max
transcript GLYMA07G16400.1
intron # 10
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|31308015|gb|CD393218.1|CD393218
EST:     GCATTCTAGTATAGTTTCTTGTGGGGCCCGTCACAGTGCTTTGCTAACTG                         ATGATGGTCACCTATTCACTTGGGGGTGGAACAAATATGGTCAG
genomic: GCATTCTAGTATAGTTTCTTGTGGGGCCCGTCACAGTGCTTTGCTAACTGgtacgcctcc ... catatcgaagATGATGGTCACCTATTCACTTGGGGGTGGAACAAATATGGTCAG
EST: gi|193331095|gb|FK293255.1|FK293255
EST:     GCATTCTAGTATAGTTTCTTGTGGGGCCCGTCACAGTGCTTTGCTAACTG                         ATGATGGTCACCTATTCACTTGGGGGTGGAACAAATATGGTCAG
genomic: GCATTCTAGTATAGTTTCTTGTGGGGCCCGTCACAGTGCTTTGCTAACTGgtacgcctcc ... catatcgaagATGATGGTCACCTATTCACTTGGGGGTGGAACAAATATGGTCAG
EST: gi|208082768|gb|GD880438.1|GD880438
EST:     GCATTCTAGTATAGTTTCTTGTGGGGCCCGTCACAGTGCTTTGCTAACTG                         ATGATGGTCACCTATTCACTTGGGGGTGGAACAAATATGGTCAG
genomic: GCATTCTAGTATAGTTTCTTGTGGGGCCCGTCACAGTGCTTTGCTAACTGgtacgcctcc ... catatcgaagATGATGGTCACCTATTCACTTGGGGGTGGAACAAATATGGTCAG
EST: gi|10846272|gb|BF069195.1|BF069195
EST:     GCATTCTAGTATAGTTTCTTGTGGGGCCCGTCACAGTGCTTTGCTAACTG                         ATGATGGTCACCTATTCACTTGGGGGTGGAACAAATATGGTCAG
genomic: GCATTCTAGTATAGTTTCTTGTGGGGCCCGTCACAGTGCTTTGCTAACTGgtacgcctcc ... catatcgaagATGATGGTCACCTATTCACTTGGGGGTGGAACAAATATGGTCAG
EST: gi|13790590|gb|BG653181.1|BG653181
EST:     GTGCTTTGCTAACTG                         ATGATGGTCACCTATTCACTTGAGGGTGGAACAAATATGGTCAG
genomic: GTGCTTTGCTAACTGgtacgcctcc ... catatcgaagATGATGGTCACCTATTCACTTGGGGGTGGAACAAATATGGTCAG
EST: gi|11690192|gb|BF597868.1|BF597868
EST:     GCATTCTAGTATAGTTTCTTGTGGGGCCCGTCACAGTGCTTTGCTAACTG                         ATGATGGTCACCTATTCACTTGGGGGTGGAACAAATATGGTCAG
genomic: GCATTCTAGTATAGTTTCTTGTGGGGCCCGTCACAGTGCTTTGCTAACTGgtacgcctcc ... catatcgaagATGATGGTCACCTATTCACTTGGGGGTGGAACAAATATGGTCAG
EST: gi|193648825|gb|FK600680.1|FK600680
EST:     TGCTTTGCTAACTG                         ATGATGGTCACCTATTCACTTGGGGGTGGAACAAATATGGTCAG
genomic: TGCTTTGCTAACTGgtacgcctcc ... catatcgaagATGATGGTCACCTATTCACTTGGGGGTGGAACAAATATGGTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactgtttcatgtttcacacatgttcgtacttgttcgttgtttatcatatcgaagATGATGGTCACCTATTCACTTGGGGGTGGAACAAATATGGTCAG
                                        tttatcatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaattccatgaaaattgaattttgctcgtcactaattacattataaactgtttcatgtttcacacatgttcgtacttgttcgttgtttatcatatcgaagATGATGGTCACCTATTCACTTGGGGGTGGAACAAATATGGTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - -ccatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtacttg