RnoINT0133888 @ rn6
Intron Retention
Gene
ENSRNOG00000013491 | Setx
Description
senataxin [Source:RGD Symbol;Acc:1565575]
Coordinates
chr3:7713236-7713632:+
Coord C1 exon
chr3:7713236-7713337
Coord A exon
chr3:7713338-7713516
Coord C2 exon
chr3:7713517-7713632
Length
179 bp
Sequences
Splice sites
5' ss Seq
TGAGTAAGT
5' ss Score
8.82
3' ss Seq
AATTTTAAATTTTGTATTAGAAA
3' ss Score
4.6
Exon sequences
Seq C1 exon
GAAACTGTGGAGATATAAATTTAGTAAGACTGGGTCCAGAAAAGTCTATTAATACAGAGGTCCTAAAATTCAGTTTGGATAGCCAAGTCAGCCATAGAATGA
Seq A exon
GTAAGTGCTGGCCCGTTTACATTGGTGTTCCTCTGCTGTTTTTATAACAAGTGATGATGGGGGCACTAGTGGTATTTTGCGGACCCCACAACTAGTCTGGCTTCTTTCTCATTGTGTTTGTGAAATGTGCCTGTGTGAATTTTGCCAGAGTTGACATGTAATTTTAAATTTTGTATTAG
Seq C2 exon
AAAAAGACTTGCCTTCTCATATTCAAGAAATGCTTAGAAGAAAAGAAATTCTAGATGCTCAACTTGATGAGCTTTCTCGTCAGCGAGCTCTGTGTCGAGGTGGGCGGGAGATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013491:ENSRNOT00000017984:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=0.179
Domain overlap (PFAM):
C1:
PF130861=AAA_11=FE(11.9=100)
A:
NA
C2:
PF130861=AAA_11=FE(13.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAATTTAGTAAGACTGGGTCCAGA
R:
CTGCATCTCCCGCCCACC
Band lengths:
202-381
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]