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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgatcgaatcaagcagcgtgttttccaatagttttgatgtgagttctatactgccagGCATGGAGTTCCACGATTTGCTAGACATCCCTCAGGGCGATCGAAGGAAGTACCACGACGATCTGTCGGTTATGGTGGTGTCTCTCGAGGGTCGGATTTG

Basic information

species Selaginella moellendorffii
transcript EFJ13137
intron # 7
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|169098747|gb|FE500259.1|FE500259
EST:     CGCCCAGTATTTGATCGAGGAGGTTCTCTTCCGCGCAGCCAGAAAGGCCG                         GTATGGAGTTCCACGATTTGCTAGACATCCCTCAGGGCGATCGAAGGAAGT
genomic: CGCCCAGTATTTGATCGAGGAGGTTCTCTTCCGCGCAGCCAGAAAGGCCGgtaagtgatc ... atactgccagGCATGGAGTTCCACGATTTGCTAGACATCCCTCAGGGCGATCGAAGGAAGT
EST: gi|169021499|gb|FE428573.1|FE428573
EST:     CGCCCAGTATTTGATCGAGGAGGTTCTCTTCCGCGCAGCCAGAAAGGCCG                         GCATGGAGTTCCACGATTTGCTAGACATCCCTCAGGGCGATCGAAGGAAGT
genomic: CGCCCAGTATTTGATCGAGGAGGTTCTCTTCCGCGCAGCCAGAAAGGCCGgtaagtgatc ... atactgccagGCATGGAGTTCCACGATTTGCTAGACATCCCTCAGGGCGATCGAAGGAAGT
EST: gi|169057606|gb|FE463657.1|FE463657
EST:     CGCCCAGTATTTGATCGAGGAGGTTCTCTTCCGCGCAGCCAGAAAGGCCG                         GCATGGAGTTCCACGATTTGCTAGACATCCCTCAGGGCGATCGAAGGAAGT
genomic: CGCCCAGTATTTGATCGAGGAGGTTCTCTTCCGCGCAGCCAGAAAGGCCGgtaagtgatc ... atactgccagGCATGGAGTTCCACGATTTGCTAGACATCCCTCAGGGCGATCGAAGGAAGT
EST: gi|169051534|gb|FE459769.1|FE459769
EST:     CGCCCAGTATTTGATCGAGGAGGTTCTCTTCCGCGCAGCCAGAAAGGCCG                         GCATGGAGTTC
genomic: CGCCCAGTATTTGATCGAGGAGGTTCTCTTCCGCGCAGCCAGAAAGGCCGgtaagtgatc ... atactgccagGCATGGAGTTC
EST: gi|169025176|gb|FE434113.1|FE434113
EST:     CGCCCAGTATTTGATCGAGGAGGTTCTCTTCCGCGCAGCCAGAAAGGCCG                         GTATGGAGTTCCACGATTTGCTAGACATCCCTCAGGGCGATCGAAGGAAGT
genomic: CGCCCAGTATTTGATCGAGGAGGTTCTCTTCCGCGCAGCCAGAAAGGCCGgtaagtgatc ... atactgccagGCATGGAGTTCCACGATTTGCTAGACATCCCTCAGGGCGATCGAAGGAAGT
EST: gi|169059192|gb|FE467194.1|FE467194
EST:     CGCCCAGTATTTGATCGAGGAGGTTCTCTTCCGCGCAGCCAGAAAGGCCG                         GTATGGAGTTCCACGATTTGCTAGACATCCCTCAGGGCGATCGAAGGAAGT
genomic: CGCCCAGTATTTGATCGAGGAGGTTCTCTTCCGCGCAGCCAGAAAGGCCGgtaagtgatc ... atactgccagGCATGGAGTTCCACGATTTGCTAGACATCCCTCAGGGCGATCGAAGGAAGT
EST: gi|169057763|gb|FE465257.1|FE465257
EST:     CGCCCAGTATTTGATCGAGGAGGTTCTCTTCCGCGCAGCCAGAAAGGCCG                         GTATGGAGTTCCACGATTTGCTAGACATCCCTCAGGGCGATCGAAGGAAGT
genomic: CGCCCAGTATTTGATCGAGGAGGTTCTCTTCCGCGCAGCCAGAAAGGCCGgtaagtgatc ... atactgccagGCATGGAGTTCCACGATTTGCTAGACATCCCTCAGGGCGATCGAAGGAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcgaatcaagcagcgtgttttccaatagttttgatgtgagttctatactgccagGCATGGAGTTCCACGATTTGCTAGACATCCCTCAGGGCGATCGAAGGAAGTACCACGACGATCTGTCGGTTATGGTGGTGTCTCTCGAGGGTCGGATTTG
                             ttttgat  putative branch site (score: 4)
                        aatagtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtgatcgaatcaagcagcgtgttttccaatagttttgatgtgagttctatactgccagGCATGGAGTTCCACGATTTGCTAGACATCCCTCAGGGCGATCGAAGGAAGTACCACGACGATCTGTCGGTTATGGTGGTGTCTCTCGAGGGTCGGATTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG