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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgagaattataagaaaagcttagcaacatccgcttactccatccattgcagATTTGACAAACTCAAGGATCTGGCGCTTTCTTATACGTTCATTTTGAGAAGCTTGGGCCTGGCGACCAGGAGCACTTCTTCTCTATAGGTATTCTGCCAC

Basic information

species Selaginella moellendorffii
transcript EFJ22335
intron # 10
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|169062604|gb|FE470274.1|FE470274
EST:     TTGCTGTTCAAGTGTGATTTTGGAGCTGGACACTCCTCGATGTCTGGAAG                         ATTTGACAAACTCAAGGATCTGGCGCTTTCTTATACGTTCATTTTGAGAAG
genomic: TTGCTGTTCAAGTGTGATTTTGGAGCTGGACACTCCTCGATGTCTGGAAGgtgcgagaat ... tccattgcagATTTGACAAACTCAAGGATCTGGCGCTTTCTTATACGTTCATTTTGAGAAG
EST: gi|169088153|gb|FE496486.1|FE496486
EST:     CTGCTGTTCAAGTGTGATTTTGGAGCTGGACACTCCTCGATGTCTGGAAG                         ATTTGACAAACTCAAGGATCTAGCACTTTCTTATACGTTCATTTTGAGAAG
genomic: TTGCTGTTCAAGTGTGATTTTGGAGCTGGACACTCCTCGATGTCTGGAAGgtgcgagaat ... tccattgcagATTTGACAAACTCAAGGATCTGGCGCTTTCTTATACGTTCATTTTGAGAAG
EST: gi|169026150|gb|FE435334.1|FE435334
EST:     TTGCTGTTCAAGTGTGATTTTGGAGCTGGACACTCCTCGATGTCTGGAAG                         ATTTGACAAACTCAAGGATCTGGCGCTTTCTTATACGTTCATTTTGAGAAG
genomic: TTGCTGTTCAAGTGTGATTTTGGAGCTGGACACTCCTCGATGTCTGGAAGgtgcgagaat ... tccattgcagATTTGACAAACTCAAGGATCTGGCGCTTTCTTATACGTTCATTTTGAGAAG
EST: gi|169037305|gb|FE445474.1|FE445474
EST:     TTGCTGTTCAAGTGTGATTTTGGAGCTGGACACTCCTCGATGTTTGGAAG                         ATTTGACAAACTCAAGGATCTGGCGCTTTTTTATACGTTCATTTTGAGAAG
genomic: TTGCTGTTCAAGTGTGATTTTGGAGCTGGACACTCCTCGATGTCTGGAAGgtgcgagaat ... tccattgcagATTTGACAAACTCAAGGATCTGGCGCTTTCTTATACGTTCATTTTGAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgcgagaattataagaaaagcttagcaacatccgcttactccatccattgcagATTTGACAAACTCAAGGATCTGGCGCTTTCTTATACGTTCATTTTGAGAAGCTTGGGCCTGGCGACCAGGAGCACTTCTTCTCTATAGGTATTCTGCCAC
                                  cgcttac  putative branch site (score: 3)
                                        ctccatcc  CT-rich tract
      agaattataagaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgagaattataagaaaagcttagcaacatccgcttactccatccattgcagATTTGACAAACTCAAGGATCTGGCGCTTTCTTATACGTTCATTTTGAGAAGCTTGGGCCTGGCGACCAGGAGCACTTCTTCTCTATAGGTATTCTGCCAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA