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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccgtgttcttatctctctttggaatcagttttttttttaataattatgagatctggttttttcaatctggcgtttcgcgttctgcgttttgctttgtcgcagtcgcttaatgttttacgtttgcgttttcgttttgcgatgcgtcgtttagGTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGCTAAGGACCCTAACAAGCCGAAGAGACCTCCAAGCGCTTTCTTCGTTTTC

Basic information

species Glycine max
transcript GLYMA16G22060.2
intron # 1
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|192298517|gb|FG989208.1|FG989208
EST:     ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAAGCCGCCGATAGCAG                         GTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGC
genomic: ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAAGCCGCCGATAGCAGgtaccgtgtt ... cgtcgtttagGTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGC
EST: gi|192325043|gb|FK015449.1|FK015449
EST:     ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAGGCCGCCGATAGCAG                         GTTGAAGCGGAAAGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGC
genomic: ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAAGCCGCCGATAGCAGgtaccgtgtt ... cgtcgtttagGTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGC
EST: gi|208283280|gb|GE087216.1|GE087216
EST:     ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAAGCCGCCGATAGCAG                         GTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGC
genomic: ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAAGCCGCCGATAGCAGgtaccgtgtt ... cgtcgtttagGTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGC
EST: gi|192307927|gb|FG998944.1|FG998944
EST:     ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAAGCCGCCGATAGCAG                         GTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGC
genomic: ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAAGCCGCCGATAGCAGgtaccgtgtt ... cgtcgtttagGTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGC
EST: gi|192307926|gb|FG998943.1|FG998943
EST:     ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAAGCCGCCGATAGCAG                         GTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGC
genomic: ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAAGCCGCCGATAGCAGgtaccgtgtt ... cgtcgtttagGTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGC
EST: gi|17401598|gb|BM178380.1|BM178380
EST:     ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAAGCCGCCGATAGCAG                         GTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAAGAAAGCTGC
genomic: ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAAGCCGCCGATAGCAGgtaccgtgtt ... cgtcgtttagGTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGC
EST: gi|192322506|gb|FK014627.1|FK014627
EST:     ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAAGCCGCCGATAGCAG                         GTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGC
genomic: ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAAGCCGCCGATAGCAGgtaccgtgtt ... cgtcgtttagGTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGC
EST: gi|5058411|gb|AI736943.1|AI736943
EST:     ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAAGCCGCCGATAGCAG                         GTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGC
genomic: ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAAGCCGCCGATAGCAGgtaccgtgtt ... cgtcgtttagGTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGC
EST: gi|192297534|gb|FG989540.1|FG989540
EST:     ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAAGCCGCCGATAGCAG                         GTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGC
genomic: ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAAGCCGCCGATAGCAGgtaccgtgtt ... cgtcgtttagGTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGC
EST: gi|208239091|gb|GE037169.1|GE037169
EST:     ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAAGCCGCCGATAGCAG                         GTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGC
genomic: ATTCTCGCCATGCCGAAAGCTAAATCCGACGCCAAAGCCGCCGATAGCAGgtaccgtgtt ... cgtcgtttagGTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgcagtcgcttaatgttttacgtttgcgttttcgttttgcgatgcgtcgtttagGTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGCTAAGGACCCTAACAAGCCGAAGAGACCTCCAAGCGCTTTCTTCGTTTTC
        gcttaat  putative branch site (score: 4)
          ttaatgtttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaccgtgttcttatctctctttggaatcagttttttttttaataattatgagatctggttttttcaatctggcgtttcgcgttctgcgttttgctttgtcgcagtcgcttaatgttttacgtttgcgttttcgttttgcgatgcgtcgtttagGTTGAAGCGGAAGGGCGCTGGTGCTGGGAGGAAGCAATCGAGGAAAGCTGCTAAGGACCCTAACAAGCCGAAGAGACCTCCAAGCGCTTTCTTCGTTTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA