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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtgaccattatggaggcattacttttcacatcttgttgatcatctagcctaccattttaaagaggcaattgggtgatccacttttcaaattgttgcagGTATATCCTGAAGGGAAAATGAGCCAGCATTTTGCAAGCTTAAAACCGGGTGATGTTGTTGAAGTGAAAGG

Basic information

species Glycine max
transcript GLYMA17G12530.1
intron # 6
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|209717393|gb|BW659069.1|BW659069
EST:     CTCCTATTTCAGATCCAGAATCAAATGGCTATTTTGATTTGCTAATCAAG                         GTATATCCTGAAGGGAAAATGAGCCAGCATTTTGCAAGCTTAAAACCGGGT
genomic: CTCCTATTTCAGATCCAGAATCAAATGGCTATTTTGATTTGCTAATCAAGgtgtgtgacc ... attgttgcagGTATATCCTGAAGGGAAAATGAGCCAGCATTTTGCAAGCTTAAAACCGGGT
EST: gi|11414158|gb|BF426169.1|BF426169
EST:     CTCCTATTTCAGATCCAGAATCAAATGGCTATTTTGATTTGCTAATCAAG                         GTATATCCTGAAGGGAAAATGAGCCAGCATTTTGCAAGCTTAAAACCGGGT
genomic: CTCCTATTTCAGATCCAGAATCAAATGGCTATTTTGATTTGCTAATCAAGgtgtgtgacc ... attgttgcagGTATATCCTGAAGGGAAAATGAGCCAGCATTTTGCAAGCTTAAAACCGGGT
EST: gi|254335317|gb|GR846814.1|GR846814
EST:     CTCCTATTTCAGATCCAGAATCAAATGGCTATTTTGATTTGCTAATCAAG                         GTATATCCTGAAGGGAAAATGAGCCAGCATTTTGCAAGCTTAAAACCGGGT
genomic: CTCCTATTTCAGATCCAGAATCAAATGGCTATTTTGATTTGCTAATCAAGgtgtgtgacc ... attgttgcagGTATATCCTGAAGGGAAAATGAGCCAGCATTTTGCAAGCTTAAAACCGGGT
EST: gi|192309123|gb|FG999070.1|FG999070
EST:     CTCCTATTTCAGATCCAGAATCAAATGGCTATTTTGATTTGCTAATCAAG                         GTATATCCTGAAGGGAAAATGAGCCAGCATTTTGCAAGCTTAAAACCGGGT
genomic: CTCCTATTTCAGATCCAGAATCAAATGGCTATTTTGATTTGCTAATCAAGgtgtgtgacc ... attgttgcagGTATATCCTGAAGGGAAAATGAGCCAGCATTTTGCAAGCTTAAAACCGGGT
EST: gi|254335318|gb|GR846815.1|GR846815
EST:     CTATTTCAGAT-CAGAATCAAATGGCTATTTTTGA-TTGCTAATCAAG                         GTATAT-CTGAAGGGAAAATGAGCCAGCATTTTGCAAGCTTAAAACCGGGT
genomic: CTATTTCAGATCCAGAATCAAATGGCTA-TTTTGATTTGCTAATCAAGgtgtgtgacc ... attgttgcagGTATATCCTGAAGGGAAAATGAGCCAGCATTTTGCAAGCTTAAAACCGGGT
EST: gi|7588554|gb|AW704277.1|AW704277
EST:     CTCCTATTTCAGATCCAGAATCAAATGGCTATTTTGATTTGCTAATCAAG                         GTATATCCTGAAGGGAAAATGAGCCAGCATTTTGCAAGCTTAAAAACCGG-
genomic: CTCCTATTTCAGATCCAGAATCAAATGGCTATTTTGATTTGCTAATCAAGgtgtgtgacc ... attgttgcagGTATATCCTGAAGGGAAAATGAGCCAGCATTTTGCAAGCTTAAAA-CCGGG
EST: gi|6071914|gb|AW101301.1|AW101301
EST:     TGCTAATCAAG                         GTATATCCTGAAGGGAAAATGAGCCAGCATTTTGCAAGCTTAAAACCGGGT
genomic: TGCTAATCAAGgtgtgtgacc ... attgttgcagGTATATCCTGAAGGGAAAATGAGCCAGCATTTTGCAAGCTTAAAACCGGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctagcctaccattttaaagaggcaattgggtgatccacttttcaaattgttgcagGTATATCCTGAAGGGAAAATGAGCCAGCATTTTGCAAGCTTAAAACCGGGTGATGTTGTTGAAGTGAAAGG
          attttaaaga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtgtgaccattatggaggcattacttttcacatcttgttgatcatctagcctaccattttaaagaggcaattgggtgatccacttttcaaattgttgcagGTATATCCTGAAGGGAAAATGAGCCAGCATTTTGCAAGCTTAAAACCGGGTGATGTTGTTGAAGTGAAAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG