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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTGCGTGAGTTCCAGAAGCTCTTGAGGCAAGCAAGCCTTGGCTCCCGCACCAATCACCACCACATCCAACCTCATCTCAAGCATCCCAGGCTTCTAGAGgtactcttgtttttttcacccctcagtttttccatatttgatgtctccag

Basic information

species Selaginella moellendorffii
transcript EFJ31885
intron # 12
splice site 5'
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|169060181|gb|FE468167.1|FE468167
EST:     CCAATCACCACCACATCCAACCTCATCTCAAGCATCCCAGGCTTCTAGAG                         ATGCACGCTCCGAGTCCTAAGATAAGCGAAGAGTCATCACAGTAAGATATT
genomic: CCAATCACCACCACATCCAACCTCATCTCAAGCATCCCAGGCTTCTAGAGgtactcttgt ... atgtctccagATGCACGCTCCGAGTCCTAAGATAAGCGAAGAGTCATCACAGTAAGATATT
EST: gi|169103514|gb|FE507387.1|FE507387
EST:     CCAATCACCACCACATCCAACCTCATCTCAAGCATCCCAGGCTTCTAGAG                         ATGCACGCTCCGAGTCCTAAGATAAGCGAAGAGTCATCACAGTAAGATATT
genomic: CCAATCACCACCACATCCAACCTCATCTCAAGCATCCCAGGCTTCTAGAGgtactcttgt ... atgtctccagATGCACGCTCCGAGTCCTAAGATAAGCGAAGAGTCATCACAGTAAGATATT
EST: gi|70669515|gb|DN838092.1|DN838092
EST:     CCA-TCACCACCACATCCAACCTCATCTCAAGCATCCCAGGCTTCTAGAG                         ATGCACGCTCCGAGTCCCTA-GATAAGCGAAGAGTCATCACAGTAAGATAT
genomic: CCAATCACCACCACATCCAACCTCATCTCAAGCATCCCAGGCTTCTAGAGgtactcttgt ... atgtctccagATGCACGCTCCGAGTCC-TAAGATAAGCGAAGAGTCATCACAGTAAGATAT
EST: gi|169098631|gb|FE497231.1|FE497231
EST:     CCAATCACCACCACATCCAACCTCATCTCAAGCATCCCAGGCTTCTAGAG                         ATGCACGCTCCGAGTCCTAAGATAAGCGAAGAGTCATCACAGTAAGATATT
genomic: CCAATCACCACCACATCCAACCTCATCTCAAGCATCCCAGGCTTCTAGAGgtactcttgt ... atgtctccagATGCACGCTCCGAGTCCTAAGATAAGCGAAGAGTCATCACAGTAAGATATT
EST: gi|169058371|gb|FE466073.1|FE466073
EST:     CCAATCACCACCACATCCAACCTCATCTCAAGCATCCCAGGCTTCTAGAG                         ATGCACGCTCCGAGTCCTAAGATAAGCGAAGAGTCATCACAGTAAGATATT
genomic: CCAATCACCACCACATCCAACCTCATCTCAAGCATCCCAGGCTTCTAGAGgtactcttgt ... atgtctccagATGCACGCTCCGAGTCCTAAGATAAGCGAAGAGTCATCACAGTAAGATATT
EST: gi|169060180|gb|FE468166.1|FE468166
EST:     CCAATCACCACCACATCCAACCTCATCTCAAGCATCCCAGGCTTCTAGAG                         ATGCACGCTCCGAGTCCTAAGATAAGCGAAGAGTCATCACAGTAAGATATT
genomic: CCAATCACCACCACATCCAACCTCATCTCAAGCATCCCAGGCTTCTAGAGgtactcttgt ... atgtctccagATGCACGCTCCGAGTCCTAAGATAAGCGAAGAGTCATCACAGTAAGATATT
EST: gi|169100850|gb|FE501699.1|FE501699
EST:     CCAATCACCACCACATCCAACCTCATCTCAAGCATCCCAGGCTTCTAGAG                         ATGCACGCTCCGAGTCCTAAGATAAGCGAAGAGTCATCACAGTAAGATATT
genomic: CCAATCACCACCACATCCAACCTCATCTCAAGCATCCCAGGCTTCTAGAGgtactcttgt ... atgtctccagATGCACGCTCCGAGTCCTAAGATAAGCGAAGAGTCATCACAGTAAGATATT

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: 34 (upstream exon), 29 (downstream exon)
Score: 24

CTTGCGTGAGTTCCAGAAGCTCTTGAGGCAAGCAAGCCTTGGCTCCCGCACCAATCACCACCACATCCAACCTCATCTCAAGCATCCCAGGCTTCTAGAGgtactcttgt ... atgtctccagATGCACGCTCCGAGTCCTAAGATAAGCGAAGAGTCATCACAGTAAGATATTTGATGGAAACAAAGACTCTGACGAGGTAACGAGACAAACTAAACTAGAC




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