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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatcacgcacactgtttggtcgattaatatttctgtgccaacagGTCTCGGCAATTGTCAATGTTTTGCTCGGTCCTTTGAGAGCCAGATCCATTTCCATCTTCGCCGGCGATGTAGTCCCTCGCAAAAAACCAGATCCA

Basic information

species Selaginella moellendorffii
transcript EFJ38583
intron # 4
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|169042045|gb|FE448511.1|FE448511
EST:     TTGCGAAGAACATCAAGGTCGCCGTTTGTAGCACCTCANACGAAAAAGCT                         GTCTCGGCTATTGTCAATGTTTTGCTCGGTCCTTTGAGAGCCAGATCCATT
genomic: TTGCGAAGAACATCAAGGTCGCCGTTTGTAGCACCTCAAACGAAAAAGCTgtaagatcac ... gtgccaacagGTCTCGGCAATTGTCAATGTTTTGCTCGGTCCTTTGAGAGCCAGATCCATT
EST: gi|169064587|gb|FE471318.1|FE471318
EST:     TTGCGAAGAACATCAAGGTCGCCGTTTGTAGCACCTCACACGAAAAAGCT                         GTCTCGGCTATTGTCAATGTTTTGCTCGGTCCTTTGAGAGCCAGATCCATT
genomic: TTGCGAAGAACATCAAGGTCGCCGTTTGTAGCACCTCAAACGAAAAAGCTgtaagatcac ... gtgccaacagGTCTCGGCAATTGTCAATGTTTTGCTCGGTCCTTTGAGAGCCAGATCCATT
EST: gi|169042044|gb|FE448510.1|FE448510
EST:     TTGCGAAGAACATCAAGGTCGCCGTTTGTAGCACCTCAAACGAAAAAGCT                         GTCTCGGCTATTGTCAATGTTTTGCTCGGTCCTTTGAGAGCCAGATCCATT
genomic: TTGCGAAGAACATCAAGGTCGCCGTTTGTAGCACCTCAAACGAAAAAGCTgtaagatcac ... gtgccaacagGTCTCGGCAATTGTCAATGTTTTGCTCGGTCCTTTGAGAGCCAGATCCATT
EST: gi|169101813|gb|FE501279.1|FE501279
EST:     TTGCGAAGAACATCAAGGTCGCCGTTTGTAGCACCTCACACGAAAAAGCT                         GTCTCGGCAATTGTCAATGTTTTGCTCGGTCCTTTGAGAGCCAGATCCATT
genomic: TTGCGAAGAACATCAAGGTCGCCGTTTGTAGCACCTCAAACGAAAAAGCTgtaagatcac ... gtgccaacagGTCTCGGCAATTGTCAATGTTTTGCTCGGTCCTTTGAGAGCCAGATCCATT
EST: gi|169064586|gb|FE471317.1|FE471317
EST:     TTGCGAAGAACATCAAGGTCGCCGTTTGTAGCACCTCAAACGAAAAAGCT                         GTCTCGGCTATTGTCAATGTTTTGCTCGGTCCTTTGAGAGCCAGATCCATT
genomic: TTGCGAAGAACATCAAGGTCGCCGTTTGTAGCACCTCAAACGAAAAAGCTgtaagatcac ... gtgccaacagGTCTCGGCAATTGTCAATGTTTTGCTCGGTCCTTTGAGAGCCAGATCCATT

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: 9 (upstream exon), 35 (downstream exon)
Score: 10

ATTAGTCGACGAAGCACTTGCGAAGAACATCAAGGTCGCCGTTTGTAGCACCTCAAACGAAAAAGCTgtaagatcac ... gtgccaacagGTCTCGGCAATTGTCAATGTTTTGCTCGGTCCTTTGAGAGCCAGATCCATTTCCATCTTCGCCGGCGATGTAGTCCCTCGCAAAAAACCAGATCCA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaagatcacgcacactgtttggtcgattaatatttctgtgccaacagGTCTCGGCAATTGTCAATGTTTTGCTCGGTCCTTTGAGAGCCAGATCCATTTCCATCTTCGCCGGCGATGTAGTCCCTCGCAAAAAACCAGATCCA
                                gattaat  putative branch site (score: 10)
                                        tttctgt  CT-rich tract
                                 attaatatttctgt  TA-rich tract