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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaaatctttcgcttggtttcgctctggaagatcctgatcgatcttttttttttttactagATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGTCTCAAGACGCGAAAGTATGGCGAGGTTCTCCCGGCGCTTACTAACATGG

Basic information

species Selaginella moellendorffii
transcript EFJ05611
intron # 12
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|169034510|gb|FE446429.1|FE446429
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169109955|gb|FE511103.1|FE511103
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169019702|gb|FE428012.1|FE428012
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169065231|gb|FE474055.1|FE474055
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169044230|gb|FE452960.1|FE452960
EST:     ACTTTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169050434|gb|FE458852.1|FE458852
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169060947|gb|FE470577.1|FE470577
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169048325|gb|FE457313.1|FE457313
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169103052|gb|FE504754.1|FE504754
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169057989|gb|FE465587.1|FE465587
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169022250|gb|FE431209.1|FE431209
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169046491|gb|FE457443.1|FE457443
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169097210|gb|FE497639.1|FE497639
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGAATCCAAGGTTTTGTGGGTGAACCCCGACTGTGGT
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGT
EST: gi|169057990|gb|FE465588.1|FE465588
EST:     ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAG                         ATGCTTGCCGTCCTGGGATCCAA
genomic: ACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAA

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 35 (upstream exon), 35 (downstream exon)
Score: 125

GGAGGGAGTCACGTATGGAGCCGGCATTGGACCCGGCGTGTACGACATCCACTCTCCGCGAATTCCAGACACCGAGGAGATGGCCGAGCGCATTCGCAAGgtacaaatct ... tttttactagATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGTCTCAAGACGCGAAAGTATGGCGAGGTTCTCCCGGCGCTTACTAACATGG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttcgcttggtttcgctctggaagatcctgatcgatcttttttttttttactagATGCTTGCCGTCCTGGAATCCAAAGTTTTGTGGGTGAACCCCGACTGTGGTCTCAAGACGCGAAAGTATGGCGAGGTTCTCCCGGCGCTTACTAACATGG
                          tcctgat  putative branch site (score: 125)
                                tcgatctttttttttt  CT-rich tract
                                   atctttttttttttta  TA-rich tract