DreINT0167122 @ danRer10
Intron Retention
Gene
ENSDARG00000101036 | traf2b
Description
Tnf receptor-associated factor 2b [Source:ZFIN;Acc:ZDB-GENE-030131-5345]
Coordinates
chr5:53786945-53787388:+
Coord C1 exon
chr5:53786945-53787023
Coord A exon
chr5:53787024-53787289
Coord C2 exon
chr5:53787290-53787388
Length
266 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGC
5' ss Score
8.15
3' ss Seq
TGGTCTTTGACTCCCCATAGGCA
3' ss Score
9.44
Exon sequences
Seq C1 exon
CTCAGGGCCCATACCCTGCGAAGCCTGTCGTGCTGAGGGTATATTTGAAGAGGAAACGTCTGTGCTTAATATTGCAGTG
Seq A exon
GTAAGCCTTGATTCTTAAATTACACCTCCTGTAAATGTATACTGCTTTAGTTTATGGTAACTGCTGTTCATATTGTTCCTGTTCATTATGTTCCTGTTCCTGTTAAAGATTATGATATTGTTAATTGCAATGACAAAGTTACAGTAAAACAAATCCTAATTGACACATAACTGCTGGCTCTGGTGTTATGTTAAAAAGTGAATGAAGTACATTTTTAAAAGGTATTAATTAATGATACAAATGTCATGGTCTTTGACTCCCCATAG
Seq C2 exon
GCATTTCCTGATAATGCAGCACGAAGAGAAATTGATAGCTTGCCTGCTAAATGCCCAAATGAAGGTTGTAGTTGGTCTGGGACACTGAAGGACTTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101036:ENSDART00000169531:3
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:
PF0009720=zf-C3HC4=PD(23.1=33.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCCATACCCTGCGAAG
R:
TCAAAGTCCTTCAGTGTCCCAG
Band lengths:
172-438
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]