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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtgaccgaaactctagggtttagtgtgagctccagggcttgaattcttgttgcgagggatctcgtcactccagGGCCCGTGGCGGAGGATATGTTCCATTGGCAAGCGACGATCATGGGGCCGCCCGACAGTCCTTACGCTGGCGGGGTGTTCTTGGTCACCATCCATTTTCC

Basic information

species Selaginella moellendorffii
transcript EFJ11260
intron # 1
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|169051151|gb|FE460245.1|FE460245
EST:     CAAGGAGTTGAAGGACTTGCAAAAGGACCCTCCCACGTCGTGCAGTGCCG                         GGCCCGTGGCGGAGGATATGTTCCATTGGCAAGCGACGATCATGGGGCCGC
genomic: CAAGGAGTTGAAGGACTTGCAAAAGGACCCTCCCACGTCGTGCAGTGCCGgtacgtgacc ... gtcactccagGGCCCGTGGCGGAGGATATGTTCCATTGGCAAGCGACGATCATGGGGCCGC
EST: gi|169094674|gb|FE492487.1|FE492487
EST:     CAAGGAGTTGAAGGACTTGCAAAAGGACCCTCCCACGTCGTGCAGTGCCG                         GGCCCGTGGCGGAGGATATGTTCCATTGGCAAGCGACGATCATGGGGCCGC
genomic: CAAGGAGTTGAAGGACTTGCAAAAGGACCCTCCCACGTCGTGCAGTGCCGgtacgtgacc ... gtcactccagGGCCCGTGGCGGAGGATATGTTCCATTGGCAAGCGACGATCATGGGGCCGC
EST: gi|169075790|gb|FE480928.1|FE480928
EST:     CAAGGAGTTGAAGGACTTGCAAAAGGACCCTCCCACGTCGTGCAGTGCCG                         GGCCCGTGGCGGAGGATATGTTCCATTGGCAAGCGACGATCATGGGGCCGC
genomic: CAAGGAGTTGAAGGACTTGCAAAAGGACCCTCCCACGTCGTGCAGTGCCGgtacgtgacc ... gtcactccagGGCCCGTGGCGGAGGATATGTTCCATTGGCAAGCGACGATCATGGGGCCGC
EST: gi|70669193|gb|DN837770.1|DN837770
EST:     CAAGGAGTTGAAGGACTTGCAAAAGGACCCTCCCACGTCGCGCAGTGCCG                         GGCCCGTGGCGGAGGATATGTTCCATTGGCAAGCGACGATCATGGGGCCGC
genomic: CAAGGAGTTGAAGGACTTGCAAAAGGACCCTCCCACGTCGTGCAGTGCCGgtacgtgacc ... gtcactccagGGCCCGTGGCGGAGGATATGTTCCATTGGCAAGCGACGATCATGGGGCCGC
EST: gi|169051150|gb|FE460244.1|FE460244
EST:     CAAGGAGTTGAAGGACTTGCAAAAGGACCCTCCCACGTCGTGCAGTGCCG                         GGCCCGTGGCGGAGGATATGTTCCATTGGCAAGCGACGATCATGGGGCCGC
genomic: CAAGGAGTTGAAGGACTTGCAAAAGGACCCTCCCACGTCGTGCAGTGCCGgtacgtgacc ... gtcactccagGGCCCGTGGCGGAGGATATGTTCCATTGGCAAGCGACGATCATGGGGCCGC
EST: gi|169075789|gb|FE480927.1|FE480927
EST:     CAAGGAGTTGAAGGACTTGCAAAAGGACCCTCCCACGTCGTGCAGTGCCG                         GGCCCGTGGCGGAGGATATGTTCCATTGGCAAGCGACGATCATGGGGCCGC
genomic: CAAGGAGTTGAAGGACTTGCAAAAGGACCCTCCCACGTCGTGCAGTGCCGgtacgtgacc ... gtcactccagGGCCCGTGGCGGAGGATATGTTCCATTGGCAAGCGACGATCATGGGGCCGC

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: 73

GCGCGCCTGTGGGTGGCCGATTGATCGGCTATGGCGTCGAAGCGCATCCTCAAGGAGTTGAAGGACTTGCAAAAGGACCCTCCCACGTCGTGCAGTGCCGgtacgtgacc ... gtcactccagGGCCCGTGGCGGAGGATATGTTCCATTGGCAAGCGACGATCATGGGGCCGCCCGACAGTCCTTACGCTGGCGGGGTGTTCTTGGTCACCATCCATTTTCC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttagtgtgagctccagggcttgaattcttgttgcgagggatctcgtcactccagGGCCCGTGGCGGAGGATATGTTCCATTGGCAAGCGACGATCATGGGGCCGCCCGACAGTCCTTACGCTGGCGGGGTGTTCTTGGTCACCATCCATTTTCC
                                         tctcgtc  CT-rich tract
                    ttgaatt  TA-rich tract