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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttgtatcacacgtacatggcgcgtttgctgacgcttctttttgcttgctgctctgtccagTTTCTTACTCTACTCCAGTGCGTCGGATACACGTTCGTCCGGAACTCCAAGGATTTGTTCCACAGCTTTGGCTTTACCACTCAGCCGGTACTTATCGGCT

Basic information

species Selaginella moellendorffii
transcript EFJ36622
intron # 10
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|169052604|gb|FE461671.1|FE461671
EST:     TGGGACACTGGAAGCTTAATCACACGACATATTCGTTCATAGCGGGACAG                         TTTCTTACTCTACTCCAGTGCGTCGGATACACGTTCGTCCGGAACTCCAAG
genomic: TGGGACACTGGAAGCTTAATCACACGACATATTCGTTCATAGCGGGACAGgttttgtatc ... ctctgtccagTTTCTTACTCTACTCCAGTGCGTCGGATACACGTTCGTCCGGAACTCCAAG




















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), 33 (downstream exon)
Score: 23

TGCACAAACGAGGACGAGGTAGTGGCCGTGATAGCGCACGAACTGGGACACTGGAAGCTTAATCACACGACATATTCGTTCATAGCGGGACAGgttttgtatc ... ctctgtccagTTTCTTACTCTACTCCAGTGCGTCGGATACACGTTCGTCCGGAACTCCAAGGATTTGTTCCACAGCTTTGGCTTTACCACTCAGCCGGTACTTATCGGCT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcacacgtacatggcgcgtttgctgacgcttctttttgcttgctgctctgtccagTTTCTTACTCTACTCCAGTGCGTCGGATACACGTTCGTCCGGAACTCCAAGGATTTGTTCCACAGCTTTGGCTTTACCACTCAGCCGGTACTTATCGGCT
                    tgctgac  putative branch site (score: 23)
                            cttctttttgcttgct  CT-rich tract
                             ttcttttt  TA-rich tract