MmuINT0025666 @ mm9
Intron Retention
Gene
ENSMUSG00000026918 | Brd3
Description
bromodomain containing 3 [Source:MGI Symbol;Acc:MGI:1914632]
Coordinates
chr2:27317941-27319112:-
Coord C1 exon
chr2:27318975-27319112
Coord A exon
chr2:27318089-27318974
Coord C2 exon
chr2:27317941-27318088
Length
886 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CCTGGGTTCTCTGTCTTCAGCCC
3' ss Score
8.01
Exon sequences
Seq C1 exon
GATTATCATAAAATAATAAAAAACCCAATGGACATGGGGACTATCAAGAAGAGACTAGAAAATAATTATTATTGGAGTGCCAGTGAGTGTATGCAGGACTTCAACACCATGTTTACAAACTGTTATATTTATAATAAG
Seq A exon
GTGAGACACAGTCGTGGGGCTCCAAAGCTGCTTGAGGGAGCAATTTCAGCACGGGGGTGGGAGGGTGGGGTGGGCTCAGGTCCATGGCATGACTATGGTGCCCTGTGAGCCCAGGCCCTCTGCCAGGGTCTCAGGCTCACAGGAGGCAAACCCTGGTATTCTTGTGGTCAGTGAGTTCCTGTGCCATTTTAATGGTCTGCTGGGGGTCAGTGGAAACTGGACAGCTTCCAGAGGACACTGACAGCTCACAGGCTCTGTCCCGGGTCCCCAACCTTAGGAACCCTGAAAGTGCAAATGTAGGGGTCCAGCCTGCCATCAGGAGGAGAGGCAGTCAAGTAGGCTGTGACCTGTGGGCAGCCACCCAAGCTGTTACACAAAGCACTGTGACTTGGAACTTCTGCAGAGTGGTCAGTGTTGGAATGGATGGCCAGGGTCACAGGGGACCCGAATTGGGGATTTGGTTTCTTAGCTTCGTGAATGCAGGAAAGTTATTGGTGTCGAGCTGTGGAAACTTCTTTTCTCTTCTGGGTGAAGGCTGTTTTGTTGTTGTTTTTTTGTTTTGGTTTTTCGAGACAGAGTTTCTCTGTATAGCTCTGACTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTAAAACTCAGAAATTCCCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGTGCCACCACGCCTGGCGTAAAGACTGTTTTTATGCTTTGCATTCTTCTCAGATTTTCCACGTTGAAAAATAATCTTGTCCTCCCTCCATGACAAATCTCTTAACAAATATAGTGCTTTCTTGAACTATAACCTACAGTGTTGTTTTTTGCAAGTGCACAACTCCTTTCCCAGTGAGTGACCTGGGTTCTCTGTCTTCAG
Seq C2 exon
CCCACAGATGATATAGTGCTAATGGCCCAGGCCTTAGAGAAAATCTTTCTGCAGAAAGTGGCCCAGATGCCTCAGGAGGAAGTTGAACTATTGCCCCCTGCTCCAAAGGGCAAAGGCCGGAAGCCAGCTGCAGGAGCCCAAAATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026918-Brd3:NM_001113574:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.004 A=NA C2=0.480
Domain overlap (PFAM):
C1:
PF0043920=Bromodomain=FE(51.7=100)
A:
NA
C2:
PF0043920=Bromodomain=PD(11.5=20.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAATGGACATGGGGACTATCA
R:
CTGCATTTTGGGCTCCTGCAG
Band lengths:
262-1148
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: