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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgccgctttctatctcgtttttgcggatgtcgtgacttcggcttcagGATAATTATGCCGTTCAAAGCTATGAGAGAGCGATCGCAGCGCACACGGCGGGTGCCTTCGAGTGGGAAATCGTCCCG

Basic information

species Selaginella moellendorffii
transcript EFJ29932
intron # 5
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|169070973|gb|FE477364.1|FE477364
EST:     TGTGTGCGGAGATATGTGCTGAGCAGCACACGATCTCAAGGGAGCAACAA                         GATAATTATGCCGTTCAAAGCTATGAGAGAGCGATCGCAGCGCACACGGCG
genomic: TGTGTGCGGAGATATGTGCTGAGCAGCACACGATCTCAAGGGAGCAACAAgtatgccgct ... tcggcttcagGATAATTATGCCGTTCAAAGCTATGAGAGAGCGATCGCAGCGCACACGGCG
EST: gi|169108075|gb|FE513826.1|FE513826
EST:     TGTGTGCGGAGATATGTGCTGAGCAGCACACGATCTCAAGGGAGCAACAA                         GATAATTATGCCG
genomic: TGTGTGCGGAGATATGTGCTGAGCAGCACACGATCTCAAGGGAGCAACAAgtatgccgct ... tcggcttcagGATAATTATGCCG
EST: gi|169033460|gb|FE441804.1|FE441804
EST:     TGTGTGCGGAGATATGTGCTGAGCAGCACACGATCTCAAGGGAGCAACAA                         GATAATTATGCCGTTCAAAGCTATGAGAGAGCGATCGCAGCGCACACGGCG
genomic: TGTGTGCGGAGATATGTGCTGAGCAGCACACGATCTCAAGGGAGCAACAAgtatgccgct ... tcggcttcagGATAATTATGCCGTTCAAAGCTATGAGAGAGCGATCGCAGCGCACACGGCG
EST: gi|169033459|gb|FE441803.1|FE441803
EST:     TGTGTGCGGAGATATGTGCTGAGCAGCACACGATCTCAAGGGAGCAACAA                         GATAATTATGCCGTTCAAAGCTATGAGAGAGCGATCGCAGCGCACACGGCG
genomic: TGTGTGCGGAGATATGTGCTGAGCAGCACACGATCTCAAGGGAGCAACAAgtatgccgct ... tcggcttcagGATAATTATGCCGTTCAAAGCTATGAGAGAGCGATCGCAGCGCACACGGCG
EST: gi|169081851|gb|FE487958.1|FE487958
EST:     TGTGTGCGGAGATATGTGCTGAGCAGCACACGATCTCAAGGGAGCAACAA                         GATAATTATGCCGTTCAAAGCTATGAGAGAGCGATCGCAGCGCACACGGCG
genomic: TGTGTGCGGAGATATGTGCTGAGCAGCACACGATCTCAAGGGAGCAACAAgtatgccgct ... tcggcttcagGATAATTATGCCGTTCAAAGCTATGAGAGAGCGATCGCAGCGCACACGGCG
EST: gi|169081850|gb|FE487957.1|FE487957
EST:     CAAGGGAGC-ACAAA                         GATAATTATGCCGTTCAAAGCTATGAGAGAGCGATCGCAGCGCACACGGC
genomic: CAAGGGAGCAAC-AAgtatgccgct ... tcggcttcagGATAATTATGCCGTTCAAAGCTATGAGAGAGCGATCGCAGCGCACACGGC
EST: gi|169114964|gb|FE516329.1|FE516329
EST:     TGTGTGCGGAGATATGTGCTGAGCAGCACACGATCTCAAGGGAGCAACAA                         GATAATTATGCCGTTCAAAGCTATGAGAGAGCGATCGCAGCGCACACGGCG
genomic: TGTGTGCGGAGATATGTGCTGAGCAGCACACGATCTCAAGGGAGCAACAAgtatgccgct ... tcggcttcagGATAATTATGCCGTTCAAAGCTATGAGAGAGCGATCGCAGCGCACACGGCG
EST: gi|169041425|gb|FE448983.1|FE448983
EST:     TGTGTGCGGAGATATGTGCTGAGCAGCACACGATCTCAAGGGAGCAACAA                         GATAATTATGCCGTTCAAAGCTATGAGAGAGCGATCGCAGCGCACACGGCG
genomic: TGTGTGCGGAGATATGTGCTGAGCAGCACACGATCTCAAGGGAGCAACAAgtatgccgct ... tcggcttcagGATAATTATGCCGTTCAAAGCTATGAGAGAGCGATCGCAGCGCACACGGCG

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), 33 (downstream exon)
Score: 31

CATGATGAAAGATGGTCTTTGGGACGTGTATAATGACTATGGAATGGGAGTGTGTGCGGAGATATGTGCTGAGCAGCACACGATCTCAAGGGAGCAACAAgtatgccgct ... tcggcttcagGATAATTATGCCGTTCAAAGCTATGAGAGAGCGATCGCAGCGCACACGGCGGGTGCCTTCGAGTGGGAAATCGTCCCG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatgccgctttctatctcgtttttgcggatgtcgtgacttcggcttcagGATAATTATGCCGTTCAAAGCTATGAGAGAGCGATCGCAGCGCACACGGCGGGTGCCTTCGAGTGGGAAATCGTCCCG
                       tttctat  TA-rich tract