RnoINT0155204 @ rn6
Intron Retention
Gene
ENSRNOG00000008145 | Traf3
Description
Tnf receptor-associated factor 3 [Source:RGD Symbol;Acc:1304633]
Coordinates
chr6:135704177-135705751:+
Coord C1 exon
chr6:135704177-135704251
Coord A exon
chr6:135704252-135705658
Coord C2 exon
chr6:135705659-135705751
Length
1407 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
ACCCGCCGTTGCTCTTGCAGGGT
3' ss Score
11.71
Exon sequences
Seq C1 exon
TTGAGTGCACACTTGTCCGAGTGTGTCAATGCCCCCAGCACCTGTAGTTTTAAGCGCTATGGCTGCGTTTTTCAG
Seq A exon
GTCAGTATCCACCGTTTGTCCTTCCCAGTTACTGACATCCTGCCACTGAAGCAAGTTCTCATAGTATTTTAACATTTGAGTTCTCACTCTTTTAGTCTTTGTCATGAAACCAAGTCACCTGCCTCATGAGTGAAAGGGCCACATACGTGCAGCAGGTGTGTGCCCCCTTGCCAGGCATCCTGAGACCTCCCGGGTGGGCAGCATGGGGAAGTCAGTATCAGACTGCTGCCCTGCAGACAGCTCCAACCGTAAGAACGGATGCAGTGACATCAGCCGGTGTCAGTGACTGTTAAACTAGTGTAGCGTTGACATCATCTGTCAGCCATTAGTGAGAGAATCACACACGGGCGTCTAGTGCTTTGCCCTCACATGTGTGCTGACTCTGCCCCCTGCCAGAGTTGGATTTGACTGGACAAAGCCTGTAAGAAACCTGCTTCCTGGAAACCGGCAGAAACCTGTATCTGGTTTTCAGTTTTTAAAAAATGTACCTGAGAATTGCTAGTGAGTCAAGATTGAGTTTTTATTCAAATATATATCCTAATTTTTATCTACCAGAAGGAAAGATAGATATGTTACCCAGGAAGTATTGTACGTTTAGTGTGCGTATTGACAGTGTGTAGTCATGGAGTCGGTACGGAGACAGCGTGTTTCGCTGTCACAGCTTTTGTTGAGAAGAGGAGACGCTGAGAGTGAGCGTGAGGTCCTCCCTTGCGTTCGTCCAGGAGGCGGCTGCACTCCCTGTTCTGTTGTACGTAGCTCCATCCGTCCTCTGTGTGTGCGTATGTATGCTGACACGGAGCCGCGCTCGGGTCAGCATGGACGGAGACAGGCTCTGTACAGAGTATGTACCTTGGAGATCATGAGAACACTTGTTCCCATTTCTTAATTTCCTGGCATCAAAACAAATTATATCCTCATACAGATTGTTTCCTCGACTGTGCACGGCCCCACTTACCGTGCTTGCTCTTGGCTTGAGTGGTCTGCATCTCACATACTCTGTAGATTGTCTATGTTTGTATGTAAATTTCTTGGCACACCCAGCCTGCCGAGGCGGTGCCTTTCTGGTTACAATGCTGTATCACAGTCCATTGGACCACTGTAGCAGCACCCGGCTGCGGCTGTAGGTTCCAGAACGTTCTCTCTATATATCTTCATGAGATGATTCGTACAGGAACAGGAGAAGTTTCAAGTTTAGCACCTTGGTTCTGCAAGTATGGAACTGATGAGCAGTGTGACCTCAGGTCAGCGCTGCAGCGTCGCAGTGTAGCCTGGGACGCCGTGGGTGAGGCCTGGGATCCCGCACACAAACCAGCCCTTCCTGTGTAGTTGCTTCTAGGGTTGTGTGCTAGGTTTCCCCTTCCCTGAGTGCCGTGACTGGTTGAGAGTCACCCGCCGTTGCTCTTGCAG
Seq C2 exon
GGTACAAACCAGCAGATCAAGGCCCACGAGGCCAGCTCCGCGGTCCAGCACGTGAACCTGCTGAAGGAGTGGAGCAACTCCCTGGAGAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008145:ENSRNOT00000010906:8
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:
PF041569=IncA=FE(11.0=100),PF101744=Cast=PU(0.7=4.0)
A:
NA
C2:
PF041569=IncA=FE(13.7=100),PF101744=Cast=FE(19.6=100),PF0205011=FliJ=PU(13.9=61.3),PF0149614=V_ATPase_I=PU(4.5=25.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]