RnoINT0155192 @ rn6
Intron Retention
Gene
ENSRNOG00000006238 | Traf2
Description
Tnf receptor-associated factor 2 [Source:RGD Symbol;Acc:1310457]
Coordinates
chr3:2750612-2751415:-
Coord C1 exon
chr3:2751143-2751415
Coord A exon
chr3:2750790-2751142
Coord C2 exon
chr3:2750612-2750789
Length
353 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
AAGTGGTCTATGCTCTGCAGGTG
3' ss Score
5.68
Exon sequences
Seq C1 exon
GTGGAGACTGAGGACCTGCAGGACCACGAGCTGCAGCGTCTACGGGAACATCTGGCCCTACTGCTGAGCTCGTTCCTGGAGTCCCAAGCCTCACAGAACCAGGTGGGGCCAGAGCTGTTACAGCGGTGCCAGATTTTGGAGCAGAAGATAGCCACCTTTGAGAACATTGTCTGCGTTTTGAACCGGGAGGTAGAGAGGGTAGCAGTGACTGCAGAGGCTTGTAGCCGGCAGCACCGTCTGGACCAGGACAAGATTGAGGCCCTAAGCAACAAG
Seq A exon
GTTTGTACTTAGCTAGGTCTTTGGAGTCTGGGCAATGTCGAACCCTTACACTGATGTCTTGGGCTCTGGCCGTCTGTTTTCTGATTCTCCTACTTTACTCTGTGAGGTTCAGTTAGAGCGTTGGATGGGCTAGCAACTGAAAGCTCTTTTTGGCCTAGGAGGGCACAGCATCAGTCACGGCACTAGGCTGGAGCTGTGAAGCTCCCGGGTACATGTATGTCCAGAGCCTTCCATGTGTACTTGGAACATTTTCCTAACACGGGACAGAAAAGACTCCAGAGGCTAGCAGTGGGGGAGGGGAGCTCAGGGCCCACAGCATATGACGTCAGAGTTAAGTGGTCTATGCTCTGCAG
Seq C2 exon
GTGCAGCAGCTGGAGAGGAGCATCGGCCTCAAGGACCTGGCCATGGCTGACCTGGAGCAGAAGGTCTCAGAGTTGGAGGTGTCCACCTATGATGGGGTCTTCATCTGGAAGATCTCCGACTTCGCCAGAAAACGTCAGGAAGCCATCGCTGGCCGGACACCTGCTATCTTCTCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006238:ENSRNOT00000008253:8
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=PD(14.0=8.8),PF045827=Reo_sigmaC=PU(69.5=97.8),PF140731=Cep57_CLD=PU(69.4=74.7)
A:
NA
C2:
PF045827=Reo_sigmaC=PD(28.9=61.7),PF140731=Cep57_CLD=PD(28.6=46.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACATCTGGCCCTACTGCTGA
R:
TCTGGCGAAGTCGGAGATCTT
Band lengths:
356-709
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]