RnoINT0155201 @ rn6
Intron Retention
Gene
ENSRNOG00000008145 | Traf3
Description
Tnf receptor-associated factor 3 [Source:RGD Symbol;Acc:1304633]
Coordinates
chr6:135695503-135696475:+
Coord C1 exon
chr6:135695503-135695607
Coord A exon
chr6:135695608-135696307
Coord C2 exon
chr6:135696308-135696475
Length
700 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
AGCTCTGCTTTGCTCCCCAGGTG
3' ss Score
10.05
Exon sequences
Seq C1 exon
GTGTTCAAGGATAATTGCTGCAAGAGAGAGATCCTGGCCCTTCAGATCTACTGTCGGAACGAAGGCAGAGGCTGCGTGGAGCAGCTGACTCTGGGACATCTGCTG
Seq A exon
GTGAGCGCCAAGCGGCACAGAGGTGTCTCTGTGCAGAGGCTGCACTTGACCCCACCCAACTGTCTGCCCGTAGTGCTGAGCTTCCCCTTTAAACAGCACCATGCAGGAAGCGGCCAGTCCCTAGGACACACAGTTCCGCTTGATGACAGCCGTGATTGTTATCCTTCACCCTCCTTCAAATAGAAGATCGGAGTTGGGCTTTTAATTTCCAAGGCACTTTATTTCTACCATGAAACTTCACAAAACTTAAGGGTTGTTTGTTTTGTTTTGTTTATTTTATTCATAGTGGATAATTGAATTCGAACAAAGGGCTTGGGGTGGAGGGGTGTGTGTGCGCACACATGAGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCTAGCTTTTGACACTGGGTCTTGTATATAGTTGAGGTTGGCCTTGAACTCAGCATCCCCCTGTCTCAGCCCATTCTGAGGATTACAGGTCTGTGTAGCCATATCTTGCTAGAATAGCAAGTTATGGTGACAGAGAGGGAGTATATGGTCCCGTCTCACGTGCTGAAGAAACACAGTGAGCCTGTGTCTCTGTGCTGGCCGCTGTTGCCCAGAACCGCCTCGGGAGTAAGGTCACAGTGCTGCCGGCCTCTGCAGCAGGTCCAGGCTGCCCCTCACACCGCTCTTCCGCAGTAAAGAGCTCTGCTTTGCTCCCCAG
Seq C2 exon
GTGCACCTGAAAAACGAGTGTCAGTTTGAGGAACTCCCCTGCCTGCGTGCCGACTGCAAAGAGAAAGTACTGAGGAGAGACTTGCGGGATCACGTGGAAAAGGCCTGTAAATACCGAGAGGCCACGTGCGCCCACTGCAAGAGCCAAGTCCCCATGATCACACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008145:ENSRNOT00000010906:5
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:
NO
A:
NA
C2:
PF0217613=zf-TRAF=PU(94.7=96.4),PF041569=IncA=PU(6.4=25.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTTCAAGGATAATTGCTGCA
R:
CTGCAGTGTGATCATGGGGAC
Band lengths:
273-973
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]