HsaINT0018489 @ hg19
Intron Retention
Gene
ENSG00000169925 | BRD3
Description
bromodomain containing 3 [Source:HGNC Symbol;Acc:1104]
Coordinates
chr9:136917428-136918712:-
Coord C1 exon
chr9:136918387-136918712
Coord A exon
chr9:136917566-136918386
Coord C2 exon
chr9:136917428-136917565
Length
821 bp
Sequences
Splice sites
5' ss Seq
CCGGTGCGT
5' ss Score
9.74
3' ss Seq
TCTGAAAATCTCTTTCCTAGGAT
3' ss Score
7.7
Exon sequences
Seq C1 exon
CTGTCGCCTGGTTGGGCCCGGAAATGGGACGTCGCGCTTTCTCAGGGAGCGTAGAAGCAGCCAGGGCCTCTCCAAGCCGCTGCTGTGACAGAAAGTGAGTGAGCTGCCGGAGGATGTCCACCGCCACGACAGTCGCCCCCGCGGGGATCCCGGCGACCCCGGGCCCTGTGAACCCACCCCCCCCGGAGGTCTCCAACCCCAGCAAGCCCGGCCGCAAGACCAACCAGCTGCAGTACATGCAGAATGTGGTGGTGAAGACGCTCTGGAAACACCAGTTCGCCTGGCCCTTCTACCAGCCCGTGGACGCAATCAAATTGAACCTGCCG
Seq A exon
GTGCGTAGCTGCTGCCTCCCCAAGAGCCACGTTCTGCTGCTGCCGTCCTCTGTCCCCCTCCTGCTGCCCCCATCCTGGAAAGACTGCCTCTGGCCTTGGGAATTTGCTGCTAAGCTGGGGACAGCCTGTGCCTCAGGAAGTCCACAGCACAGAGGCGCACAGGGGCCACATGGGCGTGGGAGAGTGGAGGGCGGCTGCCCCAGGTGCAGGAAATAGGGAGAAGCCACGCGTGTCCGGGAGGAAAGCGAGTGGGTGGTGATGGGGCTTAGGAGTCGAGGCTCACTGGGGCCTTCTTCTGCCTCACTGGCTCCTGCAGGATGGCCCATCTGCCAGCTTGGTGAGCCCACTTGGAGTTAGAGGCCGAGTGTATGTTGAGGCCTGCTTTCCAGGTGATGGTGCCCTCATCTGCATGCTCATTTTTGACCTGGGCCCAAATAGACAAACCCTGAGCATTGCAGAGGAATCCCTGGGCTGGCACTTGGTGGCCTGGGCTCTGGGCTCTGCTGGGCCCTGGTCACCTGCAGGTTTGGTCCCTGGAAGGTTTGGCCCCATCTCCAGTATGTAGACCTGTCCTGGGGTCTGCCCTAACTCCGTGGGCTCCTCTCTGCACATGCTTGGGGTCTGGAGAGAGGTTGGGCAGGAGTTTGGAGCTGGCCAAGTACTCACGTCACCATAGCCCACTGCCTTCAGAGACCAGAAAGTGCCTCTGGGCCAGCCCCAGTCCTCAGTCCACTTGGGAAGGTCGGGCTGTGTCCACTTGGGAATTGTGAAAATAATTATGTAGAATCTTCTGGTAATGCCTCTGAAAATCTCTTTCCTAG
Seq C2 exon
GATTATCATAAAATAATTAAAAACCCAATGGATATGGGGACTATTAAGAAGAGACTAGAAAATAATTATTATTGGAGTGCAAGCGAATGTATGCAGGACTTCAACACCATGTTTACAAATTGTTACATTTATAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169925-BRD3:NM_007371:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.470 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043920=Bromodomain=PU(33.3=40.8)
A:
NA
C2:
PF0043920=Bromodomain=FE(51.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCTGCTGTGACAGAAAGTGA
R:
TCCTGCATACATTCGCTTGCA
Band lengths:
347-1168
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)