RnoEX0015123 @ rn6
Exon Skipping
Gene
ENSRNOG00000006770 | Brd4
Description
bromodomain containing 4 [Source:RGD Symbol;Acc:1307282]
Coordinates
chr7:14230481-14239274:-
Coord C1 exon
chr7:14239164-14239274
Coord A exon
chr7:14234531-14234826
Coord C2 exon
chr7:14230481-14230533
Length
296 bp
Sequences
Splice sites
3' ss Seq
TTCTTTCTCCCTCTATGTAGGTC
3' ss Score
11.42
5' ss Seq
TGGGTGGGT
5' ss Score
3.82
Exon sequences
Seq C1 exon
CTGAAAAAGTTGATGTGATTGCTGGTTCTTCCAAGATGAAGGGCTTCTCATCCTCTGAGTCGGAGAGCACCAGCGAATCTAGCTCCTCTGACAGTGAAGACTCTGAAACAG
Seq A exon
GTCCTGCCTAATCATTGGACACGGACTCTTAATAAAACGGTCTTCAGTTCCAGATTCCTTCCCAGCGAGCTATAGCTTAAGTCCATTTTCTTCTGTGAAAGGGACAGGACTCCATCAAGTTATGGAATTGCTCAGAGCCCTGGGCCTATCCCCTGGGGTGGATTAGTCATGTCCAGCAGCACACACCTAGTCTCACCTTCAGGAAGGCTGCCTGCCTGGCCTGCTGCCTGGGCCTCTCTGTTCAAAGACTGCCTGGCTATCCTGCCCAGCCTCCCTGGTCATCTGGGGTCCTCTGG
Seq C2 exon
AGATGGCTCCCAAGTCAAAAAAGAAGGGGCACACTGGGAGGGACCAGAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006770-'24-30,'24-29,25-30
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Main Inclusion Isoform:
ENSRNOT00000091368fB2075


Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAAAAGTTGATGTGATTGCTGGT
R:
TGGTCCCTCCCAGTGTGC
Band lengths:
156-452
Functional annotations
There are 1 annotated functions for this event
PMID: 32203489
Usually an APA. BRD4S (using the internal APA/including this exon) forms liquid-liquid phase separated condensates within cell-nuclei. This phenomenon is mediated by the multivalent interaction of BRD4S IDR and bromo-domains to DNA and acetylated chromatin. Phosphorylation of BRD4S reduced the phase separation propensity. The nuclear puncta formed by BRD4 correlate with BRD4S and not with BRD4L expression levels. Finally the authors show that BRD4S is important for gene transcription, however this is a bit conflicting with the previous finding (PMID: 23317504) that BRD4 phosphorilation activates gene expression, as the phosophorilation of BRD4S reduces liquid-liquid phase separation.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]