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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatactacactgctctttttactctttctcaagatacatgctatctatgcagCCACCAAAATTCAGGTTTTATGATGCAGCGAAACCGATATACACCTCTCCCAGATATTTACCACCAACTAAGATTGAAAAATGCCGG

Basic information

species Selaginella moellendorffii
transcript EFJ28514
intron # 10
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|169114213|gb|FE515748.1|FE515748
EST:     TCGGGACGATCAAGTCGTTCTATGAAGCAAATCTTGCTCTTACTTGCCAG                         CCACCAAAATTCAGGTTTTATGATGCAGCGAAACCGATATACACCTCTCCC
genomic: TCGGGACGATCAAGTCGTTCTATGAAGCAAATCTTGCTCTTACTTGCCAGgtaatactac ... atctatgcagCCACCAAAATTCAGGTTTTATGATGCAGCGAAACCGATATACACCTCTCCC
EST: gi|169067020|gb|FE474437.1|FE474437
EST:     TCGGGACGATCAAGTCGTTCTATGAAGCAAATCTTGCTCTTACTTGCCAG                         CCACCAAAATTCAGGTTTTATGATGCAGCGAAACCGATATACACCTCTCCC
genomic: TCGGGACGATCAAGTCGTTCTATGAAGCAAATCTTGCTCTTACTTGCCAGgtaatactac ... atctatgcagCCACCAAAATTCAGGTTTTATGATGCAGCGAAACCGATATACACCTCTCCC
EST: gi|169103889|gb|FE508373.1|FE508373
EST:     TCGGGACGATCAAGTCGTTCTATGAAGCAAATCTTGCTCTTACTTGCCAG                         CCACCAAAATTCAGGTTTTATGATGCAGCGAAACCGATATACACCTCTCCC
genomic: TCGGGACGATCAAGTCGTTCTATGAAGCAAATCTTGCTCTTACTTGCCAGgtaatactac ... atctatgcagCCACCAAAATTCAGGTTTTATGATGCAGCGAAACCGATATACACCTCTCCC
EST: gi|169044330|gb|FE453268.1|FE453268
EST:     TCGGGACGATTAAGTCGTTCTATGAAGCAAATCTTGCTCTTACTTGCCAG                         CCACCAAAATTCAGGTTTTATGATGCAGCGAAACCGATATACACCTCTCCC
genomic: TCGGGACGATCAAGTCGTTCTATGAAGCAAATCTTGCTCTTACTTGCCAGgtaatactac ... atctatgcagCCACCAAAATTCAGGTTTTATGATGCAGCGAAACCGATATACACCTCTCCC
EST: gi|169106983|gb|FE505954.1|FE505954
EST:     TCGGGACGATCAAGTCGTTCTATGAAGCAAATCTTGCTCTTACTTGCCAG                         CCCACCAAAAT-CAGGTTTTATGATGCAGCG
genomic: TCGGGACGATCAAGTCGTTCTATGAAGCAAATCTTGCTCTTACTTGCCAGgtaatactac ... atctatgcagCC-ACCAAAATTCAGGTTTTATGATGCAGCG

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: 33 (upstream exon), 32 (downstream exon)
Score: 7

GCTTATTTGTTTAATGATTACTGGGAGGACATCGGGACGATCAAGTCGTTCTATGAAGCAAATCTTGCTCTTACTTGCCAGgtaatactac ... atctatgcagCCACCAAAATTCAGGTTTTATGATGCAGCGAAACCGATATACACCTCTCCCAGATATTTACCACCAACTAAGATTGAAAAATGCCGG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaatactacactgctctttttactctttctcaagatacatgctatctatgcagCCACCAAAATTCAGGTTTTATGATGCAGCGAAACCGATATACACCTCTCCCAGATATTTACCACCAACTAAGATTGAAAAATGCCGG
                 tcttttta  TA-rich tract