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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgaaagtacaagggccaaaaacacaatttttccttttttattattattacttccttttctgtgagttgaaaagcttacttgtatgcattacattctgcagACTATTGCCAAGGCAGTGGCAGACTGGTTTTATGGTCGAAGTTCTTTCCGCCATGTGGATTGCAATTATCCTTGCAACCCTTCTTGCCAGAACCGTGTTT

Basic information

species Glycine max
transcript GLYMA16G17120.1
intron # 11
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|6724656|gb|AW309111.1|AW309111
EST:     AACCACAGGAGACATGGTTTAAGACTGACTCTCCAAAGCTTGCCAATACA                         ACTATTGCCAAGGCAGTGGCAGACTGGTTTTATGGTCGAAGTTCTTTCCGC
genomic: AACCACAGGAGACATGGTTTAAGACTGACTCTCCAAAGCTTGCCAATACAgtaagatatt ... cattctgcagACTATTGCCAAGGCAGTGGCAGACTGGTTTTATGGTCGAAGTTCTTTCCGC
EST: gi|11117924|gb|BF219517.1|BF219517
EST:     AACCACAGGAGACATGGTTTAAGACTGACTCTCCAAAGCTTGCCAATACA                         ACTATTGCCAAGGCAGTGGCAGACTGGTTTTATGGTCGAAGTTCTTTCCGC
genomic: AACCACAGGAGACATGGTTTAAGACTGACTCTCCAAAGCTTGCCAATACAgtaagatatt ... cattctgcagACTATTGCCAAGGCAGTGGCAGACTGGTTTTATGGTCGAAGTTCTTTCCGC
EST: gi|192309097|gb|FG999058.1|FG999058
EST:     AACCACAGGAGACATGGTTTAAGACTGACTCTCCAAAGCTTGCCAATACA                         ACTATTGCCAAGGCAGTGGCAGACTGGTTTTATGGTCGAAGTTCTTTCCGC
genomic: AACCACAGGAGACATGGTTTAAGACTGACTCTCCAAAGCTTGCCAATACAgtaagatatt ... cattctgcagACTATTGCCAAGGCAGTGGCAGACTGGTTTTATGGTCGAAGTTCTTTCCGC
EST: gi|9900786|gb|BE609754.1|BE609754
EST:     AACCACAGGAGACATGGTTTAAGACTGACTCTCCAGAGCTTGCCAATACA                         ACTATTGCCATGGCAGTGTCAGACTTGGTTT-ATGGTCGAAG
genomic: AACCACAGGAGACATGGTTTAAGACTGACTCTCCAAAGCTTGCCAATACAgtaagatatt ... cattctgcagACTATTGCCAAGGCAGTGGCAGACT-GGTTTTATGGTCGAAG
EST: gi|10709182|gb|BF008906.1|BF008906
EST:     AACCACAGGAGACATGGTTTAAGACTGACTCTCCAAAGCTTGCCAATACA                         ACTATTGCCAAGGCAGTGGCAGACTGGTTT-ATGGGTCGAAGT-CTT-CCG
genomic: AACCACAGGAGACATGGTTTAAGACTGACTCTCCAAAGCTTGCCAATACAgtaagatatt ... cattctgcagACTATTGCCAAGGCAGTGGCAGACTGGTTTTATGG-TCGAAGTTCTTTCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attacttccttttctgtgagttgaaaagcttacttgtatgcattacattctgcagACTATTGCCAAGGCAGTGGCAGACTGGTTTTATGGTCGAAGTTCTTTCCGCCATGTGGATTGCAATTATCCTTGCAACCCTTCTTGCCAGAACCGTGTTT
                          agcttac  putative branch site (score: 3)
                                         attacatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cgaaagtacaagggccaaaaacacaatttttccttttttattattattacttccttttctgtgagttgaaaagcttacttgtatgcattacattctgcagACTATTGCCAAGGCAGTGGCAGACTGGTTTTATGGTCGAAGTTCTTTCCGCCATGTGGATTGCAATTATCCTTGCAACCCTTCTTGCCAGAACCGTGTTT

- - - - - - - - aaaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaagc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtatgca