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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggcattagcgttagttcttctcttgctctaacaccacggcggcgacagGCGCAAGGGCATGATCGTCAACAGCGAGCAAGAGGGCGACGATGCGGTTATCACGTGTCAC

Basic information

species Selaginella moellendorffii
transcript EFJ18610
intron # 17
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|169100390|gb|FE501187.1|FE501187
EST:     ATCAAAGCCCCGACGGAGTTCCAGGGACCTGTGGTTGGCGACATCAACAG                         GCGCAAGGGCATGATCGTCAACAGCGAGCAAGAGGGCGACGATGCGGTTAT
genomic: ATCAAAGCCCCCACGGAGTTCCAGGGACCTGTGGTTGGCGACATCAACAGgtatggcatt ... gcggcgacagGCGCAAGGGCATGATCGTCAACAGCGAGCAAGAGGGCGACGATGCGGTTAT
EST: gi|169040304|gb|FE450241.1|FE450241
EST:     ATCAAAGCCCCGACGGAGTTCCAGGGACCTGTGGTTGGCGACATCAACAG                         GCGCAAGGGCATGATCGTCAACAGCGAGCAAGAGGGCGACGATGCGGTTAT
genomic: ATCAAAGCCCCCACGGAGTTCCAGGGACCTGTGGTTGGCGACATCAACAGgtatggcatt ... gcggcgacagGCGCAAGGGCATGATCGTCAACAGCGAGCAAGAGGGCGACGATGCGGTTAT
EST: gi|169098404|gb|FE497758.1|FE497758
EST:     ATCAAAGCCCCCACGGAGTTCCAGGGACCTGTGGTTGGCGACATCAACAG                         GCGCAAGGGCATGATCGTCAACAGCGAGCAAGAGGGCGACGATGCGGTTAT
genomic: ATCAAAGCCCCCACGGAGTTCCAGGGACCTGTGGTTGGCGACATCAACAGgtatggcatt ... gcggcgacagGCGCAAGGGCATGATCGTCAACAGCGAGCAAGAGGGCGACGATGCGGTTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatggcattagcgttagttcttctcttgctctaacaccacggcggcgacagGCGCAAGGGCATGATCGTCAACAGCGAGCAAGAGGGCGACGATGCGGTTATCACGTGTCAC
                                ctctaac  putative branch site (score: 2)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatggcattagcgttagttcttctcttgctctaacaccacggcggcgacagGCGCAAGGGCATGATCGTCAACAGCGAGCAAGAGGGCGACGATGCGGTTATCACGTGTCAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG