RnoINT0133895 @ rn6
Intron Retention
Gene
ENSRNOG00000013491 | Setx
Description
senataxin [Source:RGD Symbol;Acc:1565575]
Coordinates
chr3:7721187-7722606:+
Coord C1 exon
chr3:7721187-7721279
Coord A exon
chr3:7721280-7722441
Coord C2 exon
chr3:7722442-7722606
Length
1162 bp
Sequences
Splice sites
5' ss Seq
TGAGTATGT
5' ss Score
4.43
3' ss Seq
TTTCCCATCTTTTTTTTTAGCTC
3' ss Score
10.83
Exon sequences
Seq C1 exon
ATTGACTGAAACCATTCGATGTTCATCAGAGTGGCCATTTCAGCCCTACCTCGTGTTTGATGTTGGAGATGGTTCAGAACAACGGGATAATGA
Seq A exon
GTATGTTTTTGTCTTCCTTCAGTCTCCAGTAATGGCCTCAGAATTATTAGGTTATAAGCTTTTCCCATACATACCTCTCCATTACCAAGGCATAGTCATTTTGGTATCTGTGTTGATAGCTTCCCTTTTCAGGTGACCAGTGCTTTTCAGTCCTTCAGCAGTCACAACCATGCAAGATCCCATCAAAAGATGATTGTGATCTCATGGGAAAGCAGACATGGGTAGTCCTTAAAATTTTGAGTTGTGAAGGAATGTGTTGGGTACCTATAAAACGATAGACAAGTGGAGCTAGGCGGTATGTTGCTAGGTAGCAAATGTAACAGAAGAGCCAAGGATTGCTCTGAACAGAGGAGTTAACAGCCTTGGAGGCATTGTTTATGAACTAAATACTACCCTGCTTTGGGGAAAATGTAAAAAAAAAACAAAAACAAAAATCTGAAAAACCCCACAGATTCTAAAATGAGAATAGGAAATGGGGCAGAAGATTCCCTTACAGTGAAAAGTAAAGAGGGGTCAACAGCACCGGGATCCCAACAGTAAGGAAGGTTCCTGTGATTTCTTGGAAAGGAGAACAGAAGAGGAAGAGCTGAGCCCCAAGCACATTACAGGATCAGAAAGCAACAAGGACTTGATAGTCGTAACCTGAGGGATAGCTAAGGTCTAGGAGAGTGAGCCGTCTTTCTGTGATGTGTTAGCATAGCTGATAGCATGACAGTAGCATGACTCAGGAAAACAAGGGCCCCTGTTGGTAACGGTTGGATCTACTCTGGTAATGAAAGGACACACATACTTGGGGTATGGACTGGGAGAACAGGATATGGAGAGCAGAGAGGATGATGAGGTAGCTTTCTGACATTCAGCCATTGTTCATATTTAGCTGTCTGGGTGATATCTTTTCAGCTTCGTGGTTTATTGGTTTAAACTTAGCTGACTACAAATTCCTTTTTTACAACTACTTCCTGGATTGGACAGTTATTTTATAGTTATTTATATATATAAACAATCACGAATTACATCATCTTCATGCTGCTGCCTGACTAGAGGGAAAACACCTACCTATGTGCTCTTTACTGTGATGGGAAATAAACTAACTAGAAGTAGTGAGCGACTAGACTGCTGTGAGATTTGACACCTTGTCCTCTTTTCCCATCTTTTTTTTTAG
Seq C2 exon
CTCATACATAAATGTTCAAGAAATAAAGTTGGTGATGGAAATAATTAAACTTATTAAAGAGAAAAGAAAAGATATTTCCTTCCGAAATATTGGCATAATAACTCATTACAAGGCTCAGAAGACGATGATCCAGAAGGATTTGGAGAAAGAATTTGATAAGAAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013491:ENSRNOT00000017984:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF130871=AAA_12=FE(15.3=100)
A:
NA
C2:
PF130871=AAA_12=FE(27.2=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:
TGACTGAAACCATTCGATGTTCA
R:
CAAATTCTTTCTCCAAATCCTTCTGG
Band lengths:
246-1408
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]