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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggaagcgaaaagcttttgcgttccatcacaaggaaagtttgcgaaaacacagGTGAAGCTGCTGAGATCGATGCTCCAGTGGGAAAAAGAGGTCCACTTTGAGGCGGCACGGCATCCGGATGATCCGAGCTCGGCTGTTCTCACGGAGGTCT

Basic information

species Selaginella moellendorffii
transcript EFJ12029
intron # 18
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|169018414|gb|FE427223.1|FE427223
EST:     CAAGCCAGAACTTAAGCTCGGGATCGGCGACAACGCGACTTAACAACAAG                         GTGAAGCTGCTGAGATCGATGCTCCAGTGGGAAAAAGAGGTCCACTTTGAG
genomic: CAAGCCAGAACTTAAGCTCGGGATCGGCGACAACGCGACTTAACAACAAGgtaaggaagc ... gaaaacacagGTGAAGCTGCTGAGATCGATGCTCCAGTGGGAAAAAGAGGTCCACTTTGAG
EST: gi|169020918|gb|FE431996.1|FE431996
EST:     CAAGCCAGAACTTAAGCTCGGGATCGGCGACAACGCGACTTAACAACAAG                         GTGAAGCTGCTGAGATCGATGCTCCAGTGGGAAAAAGAGGTCCACTTTGAG
genomic: CAAGCCAGAACTTAAGCTCGGGATCGGCGACAACGCGACTTAACAACAAGgtaaggaagc ... gaaaacacagGTGAAGCTGCTGAGATCGATGCTCCAGTGGGAAAAAGAGGTCCACTTTGAG
EST: gi|169018415|gb|FE427224.1|FE427224
EST:     CAAGCCAGAACTTAAGCTCGGGATCGGCGACAACGCGACTTAACAACAAG                         GTGAAGCTGCTGAGATCGATGCTCCAGTGGGAAAAAGAGGTCCACTTTGAG
genomic: CAAGCCAGAACTTAAGCTCGGGATCGGCGACAACGCGACTTAACAACAAGgtaaggaagc ... gaaaacacagGTGAAGCTGCTGAGATCGATGCTCCAGTGGGAAAAAGAGGTCCACTTTGAG
EST: gi|169027982|gb|FE435379.1|FE435379
EST:     CAAGCCAGAACTTAAGCTCGGGATCGGCGACAACGCGACTTAACAACAAG                         GTGAAGCTGCTGAGATCGATGCTCCAGTGGGAAAAAGAGGTCCACTTTGAG
genomic: CAAGCCAGAACTTAAGCTCGGGATCGGCGACAACGCGACTTAACAACAAGgtaaggaagc ... gaaaacacagGTGAAGCTGCTGAGATCGATGCTCCAGTGGGAAAAAGAGGTCCACTTTGAG
EST: gi|169058950|gb|FE468758.1|FE468758
EST:     CAAGCCAGAACTTAAGCTCGGGATCGGCGACNACGCGACTTAACAACAAG                         GTGAAGCTGCTGAGATCGATGCTCCAGTGGGAAAAAGAGGTCCACTTTGAN
genomic: CAAGCCAGAACTTAAGCTCGGGATCGGCGACAACGCGACTTAACAACAAGgtaaggaagc ... gaaaacacagGTGAAGCTGCTGAGATCGATGCTCCAGTGGGAAAAAGAGGTCCACTTTGAG
EST: gi|169100738|gb|FE502172.1|FE502172
EST:     CAAGCCAGAACTTAAGCTCGGGATCGGCGACAACGCGACTTAACAACAAG                         GTGAAGCTGCTGAGATCGATGCTCCAGTGGGAAAAAGAGGTCCACTTTGAG
genomic: CAAGCCAGAACTTAAGCTCGGGATCGGCGACAACGCGACTTAACAACAAGgtaaggaagc ... gaaaacacagGTGAAGCTGCTGAGATCGATGCTCCAGTGGGAAAAAGAGGTCCACTTTGAG
EST: gi|169050732|gb|FE457902.1|FE457902
EST:     CAAGCCAGAACTTAAGCTCGGGATCGGCGACAACGCGACTTAACAACAAG                         GTGAAGCTGCTGAGATCGATGCTCCAGTGGGAAAAAGAGGTCCACTTTGAG
genomic: CAAGCCAGAACTTAAGCTCGGGATCGGCGACAACGCGACTTAACAACAAGgtaaggaagc ... gaaaacacagGTGAAGCTGCTGAGATCGATGCTCCAGTGGGAAAAAGAGGTCCACTTTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaggaagcgaaaagcttttgcgttccatcacaaggaaagtttgcgaaaacacagGTGAAGCTGCTGAGATCGATGCTCCAGTGGGAAAAAGAGGTCCACTTTGAGGCGGCACGGCATCCGGATGATCCGAGCTCGGCTGTTCTCACGGAGGTCT
                                    aaagttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaggaagcgaaaagcttttgcgttccatcacaaggaaagtttgcgaaaacacagGTGAAGCTGCTGAGATCGATGCTCCAGTGGGAAAAAGAGGTCCACTTTGAGGCGGCACGGCATCCGGATGATCCGAGCTCGGCTGTTCTCACGGAGGTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT