RnoINT0155255 @ rn6
Intron Retention
Gene
ENSRNOG00000047957 | Traf5
Description
TNF receptor-associated factor 5 [Source:MGI Symbol;Acc:MGI:107548]
Coordinates
chr13:110770569-110771844:-
Coord C1 exon
chr13:110771680-110771844
Coord A exon
chr13:110770647-110771679
Coord C2 exon
chr13:110770569-110770646
Length
1033 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
ACATGCTCTGTCTGTTTCAGGAT
3' ss Score
12.9
Exon sequences
Seq C1 exon
GACCACCTTCAGCACTGCTCCTTCCAAGCTGTGCCCTGCCCCAACCAGAGCTGCCGGGAAGCCATGCTCCGGAAAGATGTGAAAGAGCATCTGAGTGCCTACTGCCGGTTCCGAGAGGAGAAGTGCCTTTACTGCAAGAGGGACATAGTGGTGACTAACCTGCAG
Seq A exon
GTGAGAGCAGGCACCGTGGGTGGCCATGCAACTCAGATGGAGCCTAGAAGGGCACTCTTTGCTTAACTGAATTTGGACTAAGGAGAGGGTTTGCCTGGATGGGGATGTGGCTCAGTTAATAGAGCGACTGTCTAGCACGCAGAAAGCTCTGGGTTTGAACCTGAGCACAGTAGAAACCAGTCCTGGTGGCTCACATCCCTCATCCCAGCCCTTGGAGATGGTTCACACCCCTCATCCCAGCACTCGGAGATGGTTCACACCCCTCATCCCAGCCCTTGGAGACAGGAAGGATGAGCAGTTTATCCTTTCCTTCTTAGCACTAAGGCAAGTCTGAGCTAAATGAGACAGTGTCTTTAGAAAGAGGTGATCCTGTATCATCTGAGGCTGGAGCTGGAGCTCTCTTGGTAACCTGCTTGCCTAACATTCACAAGGCCATAGGTTCGACCCACCACCACACAAACCAGGAGATGCACACTTATACTCTCAGAGTCTGAGAAGTGGAGGCAGATCTGAAGTTCAAGGGTAGCCCATCTGTGGCTGCATAGACAGGAAAGAGGGGTCAGTTTGAGATCCTGCGAAGAGTTCTAAACTTTCCCTTGGTGGAGTTCTATTCCTTTATCATTGGCGAAAATAGCATATGGTGTCTGTAAGCTTGGGAGGTGAGATGCAAGGTCTGGGTCCCTTAGAGGTGATGATAATGGCTTCTCCAGATTGCTATCTGGCTGCAGAGGCAGCATCAGCATAGAGACCACCGGTGCTTTTACACGTGCAGAGGAACCTCGCTGGTAGGTCTTAAGTCTGCCTTCTTGAGCCCCAAGCCGTCTGATCTTTCAGACACTCAGAAATCTTAAATTTTTTTTTTAGTTAAATTCATTTACATCAAGAAGTCAGACACCACTAATCTCTCTTTGGAACTGGGCTATAGCTTCCTATGGAGAGCAAACCACGCGACATGTCTCTCCAGAGAAACCTGTATGAATACCTTGAGGCAAGCGATCTTAGCTTTGTTTCCCACATGCTCTGTCTGTTTCAG
Seq C2 exon
GATCATGAGGAAAACTCGTGTCCTGCATATCCAGTGTCTTGTCCCAACAAGTGTGTGCAGACTATTCCGAGAGCTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000047957:ENSRNOT00000071698:4
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=0.000
Domain overlap (PFAM):
C1:
PF0217613=zf-TRAF=PU(94.6=96.4)
A:
NA
C2:
PF0217613=zf-TRAF=PD(1.8=3.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCTTCAGCACTGCTCCTTC
R:
CCAGCTCTCGGAATAGTCTGC
Band lengths:
239-1272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]