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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatccctttttttgttttagctttctaaaacactcttcgtcattccagAGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAACCTCCGATGGAACCTTTCAAGGCGTGGTCCAGGACGCATTCGACAAGGA

Basic information

species Selaginella moellendorffii
transcript EFJ22430
intron # 6
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|169075394|gb|FE483028.1|FE483028
EST:     CGCGAGCTGGTCTCGCGATCTTATCATCGGAGGACTTCCAAGCCTGCCGG                         AGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAA
genomic: CGCGAGCTGGTCTCGCGATCTTATCATCGGAGGACTTCCAAGCCTGCCGGgtatgtatcc ... gtcattccagAGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAA
EST: gi|169075395|gb|FE483029.1|FE483029
EST:     CGCGAGCTGGTCTCGCGATCTTATCATCGGAGGACTTCCAAGCCTGCCGG                         AGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAA
genomic: CGCGAGCTGGTCTCGCGATCTTATCATCGGAGGACTTCCAAGCCTGCCGGgtatgtatcc ... gtcattccagAGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAA
EST: gi|169103040|gb|FE506289.1|FE506289
EST:     CGCGAGCTGGTCTCGCGATCTTATCATCGGAGGACTTCCAAGCCTGCCGG                         AGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAA
genomic: CGCGAGCTGGTCTCGCGATCTTATCATCGGAGGACTTCCAAGCCTGCCGGgtatgtatcc ... gtcattccagAGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAA
EST: gi|169029806|gb|FE441026.1|FE441026
EST:     CGCGAGCTGGTCTCGCGATCTTATCATCGGAGGACTTCCAAGCCTGCCGG                         AGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAA
genomic: CGCGAGCTGGTCTCGCGATCTTATCATCGGAGGACTTCCAAGCCTGCCGGgtatgtatcc ... gtcattccagAGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAA
EST: gi|169029805|gb|FE441025.1|FE441025
EST:     CGCGAGCTGGTCTCGCGATCTTATCATCGGAGGACTTCCAAGCCTGCCGG                         AGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAA
genomic: CGCGAGCTGGTCTCGCGATCTTATCATCGGAGGACTTCCAAGCCTGCCGGgtatgtatcc ... gtcattccagAGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAA
EST: gi|169030606|gb|FE438732.1|FE438732
EST:     CGCGAGCTGGTCTCGCGATCTTATCATCGGAGGACTTCCAAGCCTGCCGG                         AGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAA
genomic: CGCGAGCTGGTCTCGCGATCTTATCATCGGAGGACTTCCAAGCCTGCCGGgtatgtatcc ... gtcattccagAGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAA
EST: gi|169103039|gb|FE506288.1|FE506288
EST:     CGCGAGCTGGTCTCGCGATCTTATCATCGGAGGACTTCCAAGCCTGCCGG                         AGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAA
genomic: CGCGAGCTGGTCTCGCGATCTTATCATCGGAGGACTTCCAAGCCTGCCGGgtatgtatcc ... gtcattccagAGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAA
EST: gi|169101352|gb|FE502521.1|FE502521
EST:     CGCGAGCTGGTCTCGCGATCTTATCATCGGAGGACTTCCAAGCCTGCCGG                         AGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAA
genomic: CGCGAGCTGGTCTCGCGATCTTATCATCGGAGGACTTCCAAGCCTGCCGGgtatgtatcc ... gtcattccagAGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAA
EST: gi|169029678|gb|FE437349.1|FE437349
EST:     CGCGAGCTGGTCTCGCGATCTTATCATCGGAGGACTTCCAAGCCTGCCGG                         AGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAA
genomic: CGCGAGCTGGTCTCGCGATCTTATCATCGGAGGACTTCCAAGCCTGCCGGgtatgtatcc ... gtcattccagAGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatgtatccctttttttgttttagctttctaaaacactcttcgtcattccagAGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAACCTCCGATGGAACCTTTCAAGGCGTGGTCCAGGACGCATTCGACAAGGA
                             ttctaaa  putative branch site (score: 2)
                                       ctcttcgtcattcc  putative PPT
             tttttttgtttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtatccctttttttgttttagctttctaaaacactcttcgtcattccagAGGGTCACTTGTTCGTTCACTCTAACGATCTAGTCTACGACGAGAAAGGAACCTCCGATGGAACCTTTCAAGGCGTGGTCCAGGACGCATTCGACAAGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA