HsaINT0018487 @ hg19
Intron Retention
Gene
ENSG00000169925 | BRD3
Description
bromodomain containing 3 [Source:HGNC Symbol;Acc:1104]
Coordinates
chr9:136899823-136901446:-
Coord C1 exon
chr9:136901154-136901446
Coord A exon
chr9:136899952-136901153
Coord C2 exon
chr9:136899823-136899951
Length
1202 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGT
5' ss Score
7.96
3' ss Seq
GCCCATTTGTTCCCCGACAGCAG
3' ss Score
6.66
Exon sequences
Seq C1 exon
ACAGCTGAAGAAAGGCGGCAAGCAGGCATCTGCCTCCTACGACTCAGAGGAAGAGGAGGAGGGCCTGCCCATGAGCTACGATGAAAAGCGCCAGCTTAGCCTGGACATCAACCGGCTGCCCGGGGAGAAGCTGGGCCGGGTAGTGCACATCATCCAATCTCGGGAGCCCTCGCTCAGGGACTCCAACCCCGACGAGATAGAAATTGACTTTGAGACTCTGAAACCCACCACTTTGCGGGAACTGGAGAGATATGTCAAGTCTTGTTTACAGAAAAAGCAAAGGAAACCGTTCT
Seq A exon
GTAAGTTGCCTGCGTGGAGCGTGGTGCTTGAAGTTCCTCTCCCCTCCTTGGCCTGCCCCTCCTGTCACTCCTCACGGACCCTGTGCGGCGAGCTTGGGCACAGGGCTGCCACGCTGTCTTGGCTCCTTCGTCCCACCACAGATGCCCTGAGGATATCTGTGCTCACCCAGGGCCAGTGGGCTTGGGGCTGAACCCAGGCCTGAGCCCCACCCAGCCAGAGCCCTCTTTCCCTGTTCTTGGGGACATGGGCAGCACTGCGTGCCTTGGCCTTAACCTTGTCCAAGGAGTGCGCGACTCTGGGGCTGGGCTCCGGCCCCAAACCCCATTCATTCAGGGCCCAGTTGGGGTCCTCACTGCATGCCTTCCTGAGGCTCCCCTCCATTTGGGGCCTTGGCTGCAGGTGACCTCTCATGGTCCCTTGCAGGGCAGACCAGCTTGTCTTATAACAAGGACACCCTCCCTTTGACTGGGGTCACAAGTCCAGAAGCCTCACAGGACGGACCCTGGGGCACCGGCCCAGGCTTCCCTGAAGTCAGTGGCAGGAACGAGTCACTGCTGGGGTCTGCAGGTCTGGCAGAGTAGGAGGGAGGGCAGACCCGAGGCAGCCCTTGTGGCAGCCCCCATAGGCTGTCAAGTGAGTGCAGGGCTCACTTGAACTTGCATGTGGCCTCTCGGGTGTGCATGGGCCTCACTTGCTCCTTTTCCTGGATGGAATGTCTGTGTGGTCATGGTGCGTCTGACCCACGGTAAGTCACCGGGTCAACTTGGAGGGAGCGACTCAGGAGTGTCAGGCAGTGGAGACCGGGCCTCCTGCTCGGGCAGATGGAGAGCAGCGGCCCTGGTGAGGCAGGTCCATGAATCAGAGGCTCTGCCCTGCACATGAGGGACGTTGGCCAAACCGCATCCTGTCCGTGCACCTGTTTGCGCCATAGGAATGGCCTCTGTCACCTTAGGATCCAGGCTTTGCTCACCCTGAGGGCTCAGCAGATGTGGGTGGTGGTGGGTCTGTCTCATCCCAGTCATTTCTGCCACTCGAAGCCCTGGTGACAGCTTTGCATCTGTCAGCTCCCAGACTCATGAAAGCTGGGCAGCTGGCATGGATGCCAGTGTGCAGGGCTGGGGCCTTGGCCACCTGGATGCAGCCCTGGCTCCTGCCCCATCGGTCTGCTCTGCAGTCTGAGTGCCCATTTGTTCCCCGACAG
Seq C2 exon
CAGCAAGCGGGAAGAAACAGGCAGCCAAGTCGAAAGAGGAGCTAGCTCAGGAAAAGAAGAAGGAGCTGGAAAAGCGTCTGCAGGATGTCAGCGGGCAGCTGAGCAGCAGCAAGAAGCCCGCCCGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169925-BRD3:NM_007371:10
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.919 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF084185=Pol_alpha_B_N=PU(29.6=34.3)
A:
NA
C2:
PF084185=Pol_alpha_B_N=FE(37.4=100)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTCCTACGACTCAGAGGAA
R:
ATCCTGCAGACGCTTTTCCAG
Band lengths:
348-1550
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)