RnoINT0155251 @ rn6
Intron Retention
Gene
ENSRNOG00000047957 | Traf5
Description
TNF receptor-associated factor 5 [Source:MGI Symbol;Acc:MGI:107548]
Coordinates
chr13:110760631-110761231:-
Coord C1 exon
chr13:110761198-110761231
Coord A exon
chr13:110760804-110761197
Coord C2 exon
chr13:110760631-110760803
Length
394 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGA
5' ss Score
5.58
3' ss Seq
AACTGTGCTCTCTTTTGTACCAA
3' ss Score
1.48
Exon sequences
Seq C1 exon
AGACAGGCAAGGCAGGCAGATTAATGCCCTCCAT
Seq A exon
GTAAGAGATCCACAGAGCAGTTAGGTCTCTTCCAGACTTGTGTCCTGCTCTCCCTCCTGCTCCTGCTCAGCCTCCTTACAGAGAAGGAACTGGGGAAGGCTTCTGAGGGAAGAAAATGCTAAATTGAGAGGAGCACAGAGGACCATGTGTGTACATGGAGGGGGGACTTTAGACACATCCAGGAAAGCTCAAAGGTTTACAAGAGGAGTGCAGCCTGGAGAGGAGGAACAAGACAAAAACAGTGGCTACAGACTCTGCAGTGCTCACCGAACTCCCTCTGTGACACTGCCACTTTCATTGGTGGATTATTACATGTGAAACATTTGTGTTAAAATTCAGCCAACAAGGTACGAATACGTTTTCTGATTTCCAAGAACTGTGCTCTCTTTTGTAC
Seq C2 exon
CAAGGCTCTCACCAGTCACACGGACAAGTCGGCTTGGCTGGAAGCGCAGGTGCGGCAGCTGCTACAAATAGTTAACCAGCAGCAAAGCCGGCTTGATCTGAGGTCTTTGGTGGATGCTGTGGACAGTGTGAAACAGAGGATCACCCAGCTGGAGGCCAGTGACCAGAGATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000047957:ENSRNOT00000071698:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.667 A=NA C2=0.034
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGACAGGCAAGGCAGGCAG
R:
TAATCTCTGGTCACTGGCCTCC
Band lengths:
206-600
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]