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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acatgagaaattgctcttatcttttggcactatttttatttcatggtttgggtctttgtgttcatggtgtgatcccttgttccctcaaacaatttaccagGTCGGGCAGAAGAGGGGTAGATTGAATATTGAGGAAGAGGATGATTCACAGCCCAAAAAGAAGGTTCGTTTGGGGGTTCCTGCTACACAATGGATTTCAG

Basic information

species Glycine max
transcript GLYMA08G47680.3
intron # 8
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|5606392|gb|AI900546.1|AI900546
EST:     TTGGACCGAATCCTGCATTGAGGCCAATTAACACTGAAGGTGCTCAAAAG                         GTCGGGCAGAACAGGGGTAGATTGAATATTGAGGAAGAGGATGATTCACAG
genomic: TTGGACCGAATCCTGCATTGAGGCCAATTAACACTGAAGGTGCTCAAAAGgtaatgccta ... aatttaccagGTCGGGCAGAAGAGGGGTAGATTGAATATTGAGGAAGAGGATGATTCACAG
EST: gi|15664134|gb|BI701505.1|BI701505
EST:     TTGGACCGAATCCTGCATTGAGGCCAATTAACACTGAAGGTGCTCAAAAG                         GTTGGGCAGAAGAGGGGTAGATTGAATATTGAGGAAGAGGATGATTCACAG
genomic: TTGGACCGAATCCTGCATTGAGGCCAATTAACACTGAAGGTGCTCAAAAGgtaatgccta ... aatttaccagGTCGGGCAGAAGAGGGGTAGATTGAATATTGAGGAAGAGGATGATTCACAG
EST: gi|17023915|gb|BM094949.1|BM094949
EST:     TTGGACCGAATCCTGCATTGAGGCCAATTAACACTGAAGGTGCTCAAAAG                         GTCGGGCAGAAGAGGGGTAGATTGAATATTGAGGAAGAGGATGATTCACAG
genomic: TTGGACCGAATCCTGCATTGAGGCCAATTAACACTGAAGGTGCTCAAAAGgtaatgccta ... aatttaccagGTCGGGCAGAAGAGGGGTAGATTGAATATTGAGGAAGAGGATGATTCACAG
EST: gi|9259290|gb|BE347367.1|BE347367
EST:     TTGGACCGAATCCTGCATTGAGGCCAATTAACACTGAAGGTGCTCAAAAG                         GTCGGGCATAAGAGGGGTAGATTGAATATTGAGGAAGAGGATGATTCACAG
genomic: TTGGACCGAATCCTGCATTGAGGCCAATTAACACTGAAGGTGCTCAAAAGgtaatgccta ... aatttaccagGTCGGGCAGAAGAGGGGTAGATTGAATATTGAGGAAGAGGATGATTCACAG
EST: gi|9899277|gb|BE608245.1|BE608245
EST:     TTGAGGCCAATTAACACTGAAGGTGCTCAAAAG                         GTCGGGCAGAAGAGGGGTAGATTGAATATTGAGGAAGAGGATGATTCACAG
genomic: TTGAGGCCAATTAACACTGAAGGTGCTCAAAAGgtaatgccta ... aatttaccagGTCGGGCAGAAGAGGGGTAGATTGAATATTGAGGAAGAGGATGATTCACAG
EST: gi|14259120|gb|BG882028.1|BG882028
EST:     TTGGACCGAATCCTGCATTGAGGCCAATTAACACTGAAGGTGCTCAAAAG                         GTCGGGCAGAAGAGGGGTAGATTGAATATTGAGGAAGAGGATGATTCACAG
genomic: TTGGACCGAATCCTGCATTGAGGCCAATTAACACTGAAGGTGCTCAAAAGgtaatgccta ... aatttaccagGTCGGGCAGAAGAGGGGTAGATTGAATATTGAGGAAGAGGATGATTCACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttgggtctttgtgttcatggtgtgatcccttgttccctcaaacaatttaccagGTCGGGCAGAAGAGGGGTAGATTGAATATTGAGGAAGAGGATGATTCACAGCCCAAAAAGAAGGTTCGTTTGGGGGTTCCTGCTACACAATGGATTTCAG
                                         aaacaattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acatgagaaattgctcttatcttttggcactatttttatttcatggtttgggtctttgtgttcatggtgtgatcccttgttccctcaaacaatttaccagGTCGGGCAGAAGAGGGGTAGATTGAATATTGAGGAAGAGGATGATTCACAGCCCAAAAAGAAGGTTCGTTTGGGGGTTCCTGCTACACAATGGATTTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG