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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggaaaagagctactgaggtcatgatactaacttttaacatcttgcagGCTCGAGAGGCTTGGGAGAGAGTGCATAGAGCAGAAAAAGTTCTGGAGGAACCTAAAACAG

Basic information

species Selaginella moellendorffii
transcript EFJ19479
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|169031850|gb|FE440134.1|FE440134
EST:     AAGCGACTCTCCTCACAATCGTTACCCTCTCGACAAACTGGCAAAAACAA                         GCTCGAGAGGCTTGGGAGAGAGTGCATAGAGCAGAAAAAGTTCTGGAGGAA
genomic: AAGCGACTCTCCTCACAATCGTTACCCTCTCGACAAACTGGCAAAAACAAgtgaggaaaa ... catcttgcagGCTCGAGAGGCTTGGGAGAGAGTGCATAGAGCAGAAAAAGTTCTGGAGGAA
EST: gi|169022993|gb|FE431567.1|FE431567
EST:     AAGCGACTCTCCTCACAATCGTTACCCTCTCGACAAACTGGCAAAAACAA                         GCTCGAGAGGCTTGGGAGAGAGTGCATAGAGAAGAAGAAGGTCTGGAGGAA
genomic: AAGCGACTCTCCTCACAATCGTTACCCTCTCGACAAACTGGCAAAAACAAgtgaggaaaa ... catcttgcagGCTCGAGAGGCTTGGGAGAGAGTGCATAGAGCAGAAAAAGTTCTGGAGGAA
EST: gi|169065530|gb|FE474822.1|FE474822
EST:     AAGCGACTCTCCTCACAATCGTTACCCTCTCGACAAACTGGCAAAAACAA                         GCTCGAGAGGCTTGGGAGAGAGTGCATAGAGAAGAAGAAGGTCTGGAGGAA
genomic: AAGCGACTCTCCTCACAATCGTTACCCTCTCGACAAACTGGCAAAAACAAgtgaggaaaa ... catcttgcagGCTCGAGAGGCTTGGGAGAGAGTGCATAGAGCAGAAAAAGTTCTGGAGGAA
EST: gi|169096827|gb|FE499843.1|FE499843
EST:     AAGCGACTCTCCTCACAATCGTTACCCTCTCGACAAACTGGCAAAAACAA                         GCTCGAGAGGCTTGGGAGAGAGTGCATAGAGCAGAAAAAGTTCTGGAGGAA
genomic: AAGCGACTCTCCTCACAATCGTTACCCTCTCGACAAACTGGCAAAAACAAgtgaggaaaa ... catcttgcagGCTCGAGAGGCTTGGGAGAGAGTGCATAGAGCAGAAAAAGTTCTGGAGGAA
EST: gi|169107720|gb|FE510936.1|FE510936
EST:     AAGCGACTCTCCTCACAATCGTTACCCTCTCGACAAACTGGCAAAAACAA                         GCTCGAGAGGCTTGNGAGAGAGTGCATAGAGAAGAAGAAGGTCTGGAGGAA
genomic: AAGCGACTCTCCTCACAATCGTTACCCTCTCGACAAACTGGCAAAAACAAgtgaggaaaa ... catcttgcagGCTCGAGAGGCTTGGGAGAGAGTGCATAGAGCAGAAAAAGTTCTGGAGGAA
EST: gi|169107719|gb|FE510935.1|FE510935
EST:     AAGCGACTCTCCTCACAATCGTTACCCTCTCGACAAACTGGCAAAAACAA                         GCTCGAGAGGCTTGGGAGAGAGTGCATAGAGAAGAAGAAGGTCTGGAGGAA
genomic: AAGCGACTCTCCTCACAATCGTTACCCTCTCGACAAACTGGCAAAAACAAgtgaggaaaa ... catcttgcagGCTCGAGAGGCTTGGGAGAGAGTGCATAGAGCAGAAAAAGTTCTGGAGGAA
EST: gi|169034505|gb|FE444565.1|FE444565
EST:     AAGCGACTCTCCTCACAATCGTTACCCTCTCGACAAACTGGCAAAAACAA                         GCTCGAGAGGCTTGGGAGAGAGTGCATAGAGAAGAAGAAGGTCTGGAGGAA
genomic: AAGCGACTCTCCTCACAATCGTTACCCTCTCGACAAACTGGCAAAAACAAgtgaggaaaa ... catcttgcagGCTCGAGAGGCTTGGGAGAGAGTGCATAGAGCAGAAAAAGTTCTGGAGGAA
EST: gi|169058671|gb|FE466880.1|FE466880
EST:     AAGCGACTCTCCTCACAATCGTTACCCTCTCGACAAACTGGCAAAAACAA                         GCTCGAGAGGCTTGGGAGAGAGTGCATAGAGAAGAAGAAGGTCTGGAGGAA
genomic: AAGCGACTCTCCTCACAATCGTTACCCTCTCGACAAACTGGCAAAAACAAgtgaggaaaa ... catcttgcagGCTCGAGAGGCTTGGGAGAGAGTGCATAGAGCAGAAAAAGTTCTGGAGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgaggaaaagagctactgaggtcatgatactaacttttaacatcttgcagGCTCGAGAGGCTTGGGAGAGAGTGCATAGAGCAGAAAAAGTTCTGGAGGAACCTAAAACAG
                                      atactaacttttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaggaaaagagctactgaggtcatgatactaacttttaacatcttgcagGCTCGAGAGGCTTGGGAGAGAGTGCATAGAGCAGAAAAAGTTCTGGAGGAACCTAAAACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA