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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattacatcagtctctttcacggcatcttatcctactcagctgttttgtagGTCGGCCTTGTGACTGCTATATGCTTCACTTGCTTTACAATCAGATCCGGAATT

Basic information

species Selaginella moellendorffii
transcript EFJ23006
intron # 7
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|169049297|gb|FE458221.1|FE458221
EST:     TACAAAGATTTCCCATCGAATCAAAGGGCCGCAGGAAAAAGCTGCGTGAG                         GTCGGCCTTGTGACTGCTATATGCTTCACTTGCTTTACAATCAGATCCGGA
genomic: TACAAAGATTTCCCATCGAATCAAAGGGCCGCAGGAAAAAGCTGCGTGAGgtaattacat ... tgttttgtagGTCGGCCTTGTGACTGCTATATGCTTCACTTGCTTTACAATCAGATCCGGA
EST: gi|169087157|gb|FE493104.1|FE493104
EST:     TACAAAGATTTCCCATCGAATCAAAGGGCCGCAGGAAAAAGCTGCGTGAG                         GTCGGCCTTGTGACTGCTATATGCTTCACTTGCTTTACAATCAGATCCGGA
genomic: TACAAAGATTTCCCATCGAATCAAAGGGCCGCAGGAAAAAGCTGCGTGAGgtaattacat ... tgttttgtagGTCGGCCTTGTGACTGCTATATGCTTCACTTGCTTTACAATCAGATCCGGA
EST: gi|70670999|gb|DN839576.1|DN839576
EST:     TACAAAGATTTCCCATCGAATCAAAGGGCCGCAGGAAAAAGCTGCGTGAG                         GTCGGCCTTGTGACTGCTATATGCTTCACTTGCTTTACAATCAGATCCGGA
genomic: TACAAAGATTTCCCATCGAATCAAAGGGCCGCAGGAAAAAGCTGCGTGAGgtaattacat ... tgttttgtagGTCGGCCTTGTGACTGCTATATGCTTCACTTGCTTTACAATCAGATCCGGA

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: 30 (upstream exon), 25 (downstream exon)
Score: 3

GCTGTTCTTGATGCTACAAAGATTTCCCATCGAATCAAAGGGCCGCAGGAAAAAGCTGCGTGAGgtaattacat ... tgttttgtagGTCGGCCTTGTGACTGCTATATGCTTCACTTGCTTTACAATCAGATCCGGAATT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaattacatcagtctctttcacggcatcttatcctactcagctgttttgtagGTCGGCCTTGTGACTGCTATATGCTTCACTTGCTTTACAATCAGATCCGGAATT
                                             ctgtttt  CT-rich tract
     attacat  TA-rich tract