HsaINT0018492 @ hg19
Intron Retention
Gene
ENSG00000169925 | BRD3
Description
bromodomain containing 3 [Source:HGNC Symbol;Acc:1104]
Coordinates
chr9:136913205-136915710:-
Coord C1 exon
chr9:136915496-136915710
Coord A exon
chr9:136913577-136915495
Coord C2 exon
chr9:136913205-136913576
Length
1919 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGGTTATTTCACTGTCGCAGAAA
3' ss Score
7.31
Exon sequences
Seq C1 exon
GTACACAGCAAGTGGCGGCCGTGTCCTCTGTCTCCCCAGCGACCCCCTTTCAGAGCGTGCCCCCCACCGTCTCCCAGACGCCCGTCATCGCTGCCACCCCTGTACCAACCATCACTGCAAACGTCACGTCGGTCCCAGTCCCCCCAGCTGCCGCCCCACCTCCTCCTGCCACACCCATCGTCCCCGTGGTCCCTCCTACGCCGCCTGTCGTCAAG
Seq A exon
GTGAGCACCCTGAGTCCGGATGGGTGGGGCACCTGAGCCCGGCCAGGGTTCCTGAGGTCAGGGCAGGAGCAGCAGGCGGGGGGCCCCCACCTTTCCCTGAGTGCTGGCTCTTGGGAGTGTTTCTCTCTGCGCCCTGGGAGCTCAGGCCGTTGTTACTGACACAGATGAGGAGACCTAGGCCTGGGGAGCTGAAGGTCACACAGCTGGTAAGGGAGGGCCTGGCTGAACTTGAACCCCAGCTTCTCTGGCCAGAAGCCCTGGCCAAAGGCTTGGTCAAGGTGGGGAAGTTGTGGGAGAGAAGCCAGGGTGGGAGGGGTCCCGGTCCTCCCCTGCTCACACTCAGGAGAGTGGTGCCAGCTGTACCTACCTGGGTGCGTTGTGAGGTGCCAGCACCCAAGCTGGCCCCGCCTGTGGGCTCCACATGGGAGCATGGGGACCTGCCTGTCCTGCTCCCCACTTGGCTGGGAGCTTTTCTCAGTGGGCCCTGTTGGTCTTGGCAGGGAGTGGGTGCTCCCTGCAAGATTTGGGGCTGGCGAGGCCTGGTGAGTCTCCTGCTTTGGGCAGGGCCCGTGCCAGGCACTTATGTGTATTATCTTCTTCGATTTGATCCTCACAGCAACCCTCTGGGGCAGACAGTATTTCCCCCATCTTACAGATGAGGAAGCGGGCGCTCAGAGGGGTTAAATGGCTCGCCCAAGGTAAAATGCCACCTCCGTTGCTTCCCCTCCCCGTGGCCTTCACTGCCTGCACTTATGGGTGGCCCCTGGTCAAGCCGCCTCCCCCAGTGGGGGCTGTTTCTGGAGCATGTCCCATTTGCCACGGCCAGACGAGTCTGTCCCCGCTCCTATCCGCCCTGTGCGGCACGCGCCTGGCGCTTGGCAGCACGTGGGTGCCTGCCAAGTGTTTGTGGATAGCCGGCTCCGGCCCCTGCCAGTCTGAGGGCGGCGGCTTGGCTGGGCAGTGACTGTGGGTGGCTCTCTAGACGGCAGGTGCCGTGGGCTGGGAGCCGTGGCTCCCGCTGGCTCCTCTCCCGCTGGGCTAAGATTAGAAGCTGGCTGAGCTGGTCTCAGGGTGCACACTGAGCCCTGGCCCTGGAACGCTGAGGTGATGCCCATGGGTGCTGGGTGCTGAGGCCCTTGCAGGCTGCCCAGAGAGACCTGCACACCCCCAGGAGGCCTGGACGTTAAACATGCGCGTCTGCCTGGTGCCTGGCTCCGTCCCCAGGACACACCCACAGAAGGTTCTGTGGGTCATCTCCCTCCTCTCCTTGCTTGAAATGGCCTTCGGTGGCTCCCACTGCTGCTGGGATGGAGTCCAGACTTGCCCACTCAATCCCTGAGGTCCCTTGTTCCCAGAGCTGCTGTGGCTGCTTCATGCCTCCTGGTTGGGCTGCCCCTTGCCCTGTGTCTGGAATGCTCTCCTGCCTCCCTCTTGTCCCGCAAAACTTGTGTTTGTCCGCGGAGCCCCCGCTCTCAGGCCCTTGTCTGGAACTTTCCTGGAAGCAGGGAGTTCCTCCCAGGTCTCTGCAGCACCGAGGTCCCCGGGTCCTGGTCTGGGTGCTTGTTAGGTGTCTGGCGAATTGCATGCAGCACCTCACATGGCTTGGGGTGTGAGGTGCGAGCCCACCCGGGACCCCTGAGCCCTCGGGGCTAAGGGAGAGAGGTATCTCCCCTCGCCCAGGTGAGGGCGGGTTTCAGAGTTGATCCTGAGGGAGAGTCCCAGCCTCACCACTGCCAGCTGTGTGACCTTGGGCCAGTGACATGGCCCCTGAGCCTTGGTGTCCTCTCCTGTGGGGCCGTGCATGTGGCCGCTTAGCCCAGCGCCAGGCAGGCAGACAGTGCCCCAGAAACGCGGCTGCAGCGACATGCGTCTTCGGGGCCCCTGGTTTCCGGGGTTCACTGGTTATTTCACTGTCGCAG
Seq C2 exon
AAAAAGGGCGTGAAGCGGAAAGCAGACACAACCACTCCCACGACGTCGGCCATCACTGCCAGCCGGAGTGAGTCGCCCCCGCCGTTGTCAGACCCCAAGCAGGCCAAAGTGGTGGCCCGGCGGGAGAGTGGTGGCCGCCCCATCAAGCCTCCCAAGAAGGACCTGGAGGACGGCGAGGTGCCCCAGCACGCAGGCAAGAAGGGCAAGCTGTCGGAGCACCTACGCTACTGCGACAGCATCCTCAGGGAGATGCTATCCAAGAAGCACGCGGCCTACGCCTGGCCCTTCTACAAGCCAGTGGATGCCGAGGCCCTGGAGCTGCACGACTACCACGACATCATCAAGCACCCGATGGACCTCAGCACCGTGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169925-BRD3:NM_007371:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.958 A=NA C2=0.628
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043920=Bromodomain=PU(52.8=37.9)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCACTGCAAACGTCACGTC
R:
ATCTCCCTGAGGATGCTGTCG
Band lengths:
357-2276
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)