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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGACGAGAACGACAAGTCTAAGGGTTTTGGCTTCGTGAATTTTGACGATCCGGAGGCTGCAAGGGCAGCGGTTGAAACGATGAACAATAGCCAACTTGgtaagccttcttggcctttgaggtgcattttaacatttttgctcggcag

Basic information

species Selaginella moellendorffii
transcript EFJ38579
intron # 4
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|169087005|gb|FE493069.1|FE493069
EST:     CCCGGAGGCTGCAAGGGCAGCGGTTGAAACGATGAACAACAGCCAACTTG                         GATCCAGAACAATATACGTCGGAAGGGCGCAGAAGAAGGCGGAACGTGAGC
genomic: TCCGGAGGCTGCAAGGGCAGCGGTTGAAACGATGAACAATAGCCAACTTGgtaagccttc ... tgctcggcagGATCCAGAACAATATACGTCGGAAGGGCGCAGAAGAAGGCGGAACGTGAGC
EST: gi|169036917|gb|FE446035.1|FE446035
EST:     CCCGGAGGCTGCAAGGGCAGCGGTTGAAACGATGAACAACAGCCAACTTG                         GATCCAGAACAATATACGTCGGAAGGGCGCAGAAGAAGGCGGAACGTGAGC
genomic: TCCGGAGGCTGCAAGGGCAGCGGTTGAAACGATGAACAATAGCCAACTTGgtaagccttc ... tgctcggcagGATCCAGAACAATATACGTCGGAAGGGCGCAGAAGAAGGCGGAACGTGAGC
EST: gi|169047279|gb|FE456528.1|FE456528
EST:     CCCGGAGGCTGCAAGGGCAGCGGTTGAAACGATGAACAACAGCCAACTTG                         GATCCAGAACAATATACGTCGGAAGGGCGCAGAAGAAGGCGGAACGTGAGC
genomic: TCCGGAGGCTGCAAGGGCAGCGGTTGAAACGATGAACAATAGCCAACTTGgtaagccttc ... tgctcggcagGATCCAGAACAATATACGTCGGAAGGGCGCAGAAGAAGGCGGAACGTGAGC
EST: gi|169024783|gb|FE435475.1|FE435475
EST:     CCCGGAGGCTGCAAGGGCAGCGGTTGAAACGATGAACAACAGCCAACTTG                         GATCCAGAACAATATACGTCGGAAGGGCGCAGAAGAAGGCGGAACGTGAGC
genomic: TCCGGAGGCTGCAAGGGCAGCGGTTGAAACGATGAACAATAGCCAACTTGgtaagccttc ... tgctcggcagGATCCAGAACAATATACGTCGGAAGGGCGCAGAAGAAGGCGGAACGTGAGC
EST: gi|169020196|gb|FE428245.1|FE428245
EST:     CCCGGAGGCTGCAAGGGCAGCGGTTGAAACGATGAACAACAGCCAACTTG                         GATCCAGAACAATATACGTCGGAAGGGCGCAGAAGAAGGCGGAACGTGAGC
genomic: TCCGGAGGCTGCAAGGGCAGCGGTTGAAACGATGAACAATAGCCAACTTGgtaagccttc ... tgctcggcagGATCCAGAACAATATACGTCGGAAGGGCGCAGAAGAAGGCGGAACGTGAGC
EST: gi|169079669|gb|FE486333.1|FE486333
EST:     CCCGGAGGCTGCAAGGGCAGCGGTTGAAACGATGAACAACAGCCAACTTG                         GATCCAGAACAATATACGTCGGAAGGGCGCAGAAGAAGGCGGAACGTGAGC
genomic: TCCGGAGGCTGCAAGGGCAGCGGTTGAAACGATGAACAATAGCCAACTTGgtaagccttc ... tgctcggcagGATCCAGAACAATATACGTCGGAAGGGCGCAGAAGAAGGCGGAACGTGAGC
EST: gi|169045998|gb|FE453115.1|FE453115
EST:     CCCGGAGGCTGCAAGGGCAGCGGTTGAAACGATGAACAACAGCCAACTTG                         GATCCAGAACAATATACGTCGGAAGGGCGCAGAAGAAGGCGGAACGTGAGC
genomic: TCCGGAGGCTGCAAGGGCAGCGGTTGAAACGATGAACAATAGCCAACTTGgtaagccttc ... tgctcggcagGATCCAGAACAATATACGTCGGAAGGGCGCAGAAGAAGGCGGAACGTGAGC
EST: gi|169093873|gb|FE493461.1|FE493461
EST:     CCCGGAGGCTGCAAGGGCAGCGGTTGAAACGATGAACAACAGCCAACTTG                         GATCCAGAACAATATACGTCGGAAGGGCGCAGAAGAAGGCGGAACGTGAGC
genomic: TCCGGAGGCTGCAAGGGCAGCGGTTGAAACGATGAACAATAGCCAACTTGgtaagccttc ... tgctcggcagGATCCAGAACAATATACGTCGGAAGGGCGCAGAAGAAGGCGGAACGTGAGC

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: 60

AAAGACGAGAACGACAAGTCTAAGGGTTTTGGCTTCGTGAATTTTGACGATCCGGAGGCTGCAAGGGCAGCGGTTGAAACGATGAACAATAGCCAACTTGgtaagccttc ... tgctcggcagGATCCAGAACAATATACGTCGGAAGGGCGCAGAAGAAGGCGGAACGTGAGCAGATACTTCGCCGACAATTCGAAGAGAAACGGATGGAACAGTTCCAGAA




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