RnoINT0133893 @ rn6
Intron Retention
Gene
ENSRNOG00000013491 | Setx
Description
senataxin [Source:RGD Symbol;Acc:1565575]
Coordinates
chr3:7720224-7721279:+
Coord C1 exon
chr3:7720224-7720411
Coord A exon
chr3:7720412-7721186
Coord C2 exon
chr3:7721187-7721279
Length
775 bp
Sequences
Splice sites
5' ss Seq
TAGGTGGGT
5' ss Score
5.56
3' ss Seq
ATATGATTGCTTTTCTATAGATT
3' ss Score
7.71
Exon sequences
Seq C1 exon
AAAGCACAGGAGTATGGCTATGACCAGTCGATGATGGCGCGATTCTGCAAGCTGCTGGAAGAGAATGTGGAGCAGAACATGATTGGCAGGCTGCCGGTGCTACAGCTCACCATTCAGTACAGGATGCATCCAGACATATGTCTCTTCCCTTCTAATTACGTTTATAATAAAAACCTGAAGACAAATAG
Seq A exon
GTGGGTGTCCTGTAGTGCTTGTAAGCTTGTCCTTTGGGAAGCGGTAGCTGCTTATGAAGATGTCTTGGTGTAAAAAGCATAAACCAGACTAGCTGTGTTAGCCAATGCAGGTGATCCTATTTACTTGGGAAGTAGAAGCAGGAAGATTGTTGAGACTTAAGAGGCCAGCCAAGGCTACAGAGTAAGACCCTGTTTGGAGGTGGCAGGAGGGAGGGTGCTTACCTTAAATCATTGTGCTATGTTGACTGTATGAAGTGCAGATAGATTGAAAAGAAGAGAGGGGGCAGGGTGGTGACAGCACACATCTTTAATCCCAGCACTTAGGAGACAGAGGCAGAAGGGTCTCAAGTTAGGGGCCAGCTGGGGATACATGGAGAAAGCTGTCTCTAAAAAGGGGAAGGGAGAATCACCATGTTCAATAATCACTGGTGATTTCATGGCCTACCTATGGTACTAGAGATTGAAGCCAGGCTCTTAGTCTTGCTTGTGCATTTGCTCTCCCTGGAGGCCGCACCTTGTGTTTGTAGCCCTGAATGTGTGTCTCCTGTACTGTTGTGAGCTGTTCTTGAGTCACGATTGTTCAGATCTTCTTCCTGGGTACCACAATGGAAATAAAATCCAGTTTAGACTTTTCATTACTGTGCATTTGTGAAAGAAGATCTCTTAATCTCCTAACTTTCTCCTGGTTCTGTCTCACACAGAAAATAAAAGAAGAAGATATTGATAAAATGTGTGCTTTAGAGCATATTTTCTGAATATGATTGCTTTTCTATAG
Seq C2 exon
ATTGACTGAAACCATTCGATGTTCATCAGAGTGGCCATTTCAGCCCTACCTCGTGTTTGATGTTGGAGATGGTTCAGAACAACGGGATAATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013491:ENSRNOT00000017984:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF130871=AAA_12=PU(27.7=88.9)
A:
NA
C2:
PF130871=AAA_12=FE(15.3=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:
GCACAGGAGTATGGCTATGACC
R:
TCATTATCCCGTTGTTCTGAACCA
Band lengths:
278-1053
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]