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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggatttcgttgtttacgttccttctgtctcttaactttgggttttgttacttagTTACGTGCTGCTCACAAGTTATCCAGTCAATTGAAACGAGAGGTGGTTTTGGGATCGACTTGCATTGATGATCCTCATCAATTTGTCGCG

Basic information

species Selaginella moellendorffii
transcript EFJ13784
intron # 19
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|169048405|gb|FE457354.1|FE457354
EST:     CTGGGAAGCGCATTTTTGTGTTCGTGGTGGGCGGTATAACACACTCCGAG                         TTACGTGCTGCTCACAAGTTATCCAGTCAATTGAAACGAGAGGTGGTTTTG
genomic: CTGGGAAGCGCATTTTTGTGTTCGTGGTGGGCGGTATAACACACTCCGAGgttggatttc ... tgttacttagTTACGTGCTGCTCACAAGTTATCCAGTCAATTGAAACGAGAGGTGGTTTTG




















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), 28 (downstream exon)
Score: 11

TGACTCTGTGTTGAAAAGCGCCCTGAGTGACCCCAAGATGATAACTGGGAAGCGCATTTTTGTGTTCGTGGTGGGCGGTATAACACACTCCGAGgttggatttc ... tgttacttagTTACGTGCTGCTCACAAGTTATCCAGTCAATTGAAACGAGAGGTGGTTTTGGGATCGACTTGCATTGATGATCCTCATCAATTTGTCGCG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggatttcgttgtttacgttccttctgtctcttaactttgggttttgttacttagTTACGTGCTGCTCACAAGTTATCCAGTCAATTGAAACGAGAGGTGGTTTTGGGATCGACTTGCATTGATGATCCTCATCAATTTGTCGCG
                             tcttaac  putative branch site (score: 11)
                                          ttttgtt  putative PPT
                               ttaacttt  TA-rich tract