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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGGgtatgtttagtgttataatatgttctcctgttattgagtcttggttgaacag

Basic information

species Selaginella moellendorffii
transcript EFJ18540
intron # 9
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|169107452|gb|FE509140.1|FE509140
EST:     GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG                         ATATTCTATCTCGTTGGCTTTGGCCTTTTTGTCCTGGAATCTCTCCTCAGC
genomic: GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGGgtatgtttag ... ggttgaacagATATTTTATCTCGTTGGCTTTGGCCTTTTTGTCCTGGAATCTCTCCTCAGC
EST: gi|169105291|gb|FE507628.1|FE507628
EST:     GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG                         ATATTTTATCTCGTTGGCTTTGGCCTTTTTGTCCTGGAATCTCTCCTCAGC
genomic: GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGGgtatgtttag ... ggttgaacagATATTTTATCTCGTTGGCTTTGGCCTTTTTGTCCTGGAATCTCTCCTCAGC
EST: gi|169102152|gb|FE505778.1|FE505778
EST:     GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG                         ATATTCTATCTCGTTGGCTTTGGCCTTTTTGTCCTGGAATCTCTCCTCAGC
genomic: GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGGgtatgtttag ... ggttgaacagATATTTTATCTCGTTGGCTTTGGCCTTTTTGTCCTGGAATCTCTCCTCAGC
EST: gi|169105683|gb|FE508449.1|FE508449
EST:     GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG                         ATATTCTATCTCGTTGGCTTTGGCCTTTTTGTCCTGGAATCTCTCCTCAGC
genomic: GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGGgtatgtttag ... ggttgaacagATATTTTATCTCGTTGGCTTTGGCCTTTTTGTCCTGGAATCTCTCCTCAGC
EST: gi|169040327|gb|FE450251.1|FE450251
EST:     GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG                         ATATTCTATCTCGTTGGCTTTGGCCTTTTTGTCCTGGAATCTCTCCTCAGC
genomic: GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGGgtatgtttag ... ggttgaacagATATTTTATCTCGTTGGCTTTGGCCTTTTTGTCCTGGAATCTCTCCTCAGC
EST: gi|169049667|gb|FE457759.1|FE457759
EST:     GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG                         ATATTCTATCTCGTTG
genomic: GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGGgtatgtttag ... ggttgaacagATATTTTATCTCGTTG
EST: gi|169049666|gb|FE457758.1|FE457758
EST:     GGGCATTCTACCAGCGATTCAGATCTTCTTTGACAGTGTCATAATCGGG                         ATATTCTATCTCGTTGGCTTTGGCCTTTTTGTCCTGGAATCTCTCCTCAGC
genomic: GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGGgtatgtttag ... ggttgaacagATATTTTATCTCGTTGGCTTTGGCCTTTTTGTCCTGGAATCTCTCCTCAGC
EST: gi|169051997|gb|FE460336.1|FE460336
EST:     GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGG                         ATATTCTATCTCGTTGGCTTTGGCCTTTTTGTCCTGGAATCTCTCCTCAGC
genomic: GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGGgtatgtttag ... ggttgaacagATATTTTATCTCGTTGGCTTTGGCCTTTTTGTCCTGGAATCTCTCCTCAGC

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: 32 (upstream exon), 35 (downstream exon)
Score: 17

GGGCATTCTACCAGCGATTCAGATCTTCTCTGACAGTGTCATAATCGGGgtatgtttag ... ggttgaacagATATTTTATCTCGTTGGCTTTGGCCTTTTTGTCCTGGAATCTCTCCTCAGCCTATGGGTTCTCCGG




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