MmuINT0025671 @ mm10
Intron Retention
Gene
ENSMUSG00000026918 | Brd3
Description
bromodomain containing 3 [Source:MGI Symbol;Acc:MGI:1914632]
Coordinates
chr2:27452833-27454504:-
Coord C1 exon
chr2:27454313-27454504
Coord A exon
chr2:27453075-27454312
Coord C2 exon
chr2:27452833-27453074
Length
1238 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
AGCTGCTTGCTCTTTTCTAGCTG
3' ss Score
7.8
Exon sequences
Seq C1 exon
GATGTGTTTGAGATGAGGTTTGCCAAGATGCCCGATGAGCCCATGGAGGCGCCTGCGCTGCCCGCTCCCACGGCCCCCATCGTGAGCAAGGGGGCTGAGAGCAGCCGCAGTAGTGAGGAGAGCTCTTCAGATTCAGGCAGCTCAGACTCAGAAGAGGAGCGAGCCACTCGGCTGGCTGAGCTGCAGGAGCAG
Seq A exon
GTGAGGGTGAGCAGCCCTGCTGCTTCCCACTGGGCATGTGCCACCAAGCCTAGCTGCCCGAGCTGGCCCCGGCCGGCCATCCTCTTTCCTTTCCTTCGCCTGCTGCGGCCCTTGTCTGTGCTGGTGGAGTAGTCTCTGGTGGGGTTGCTCACAGAACCTTCCTGGGTCTGAGGAGGCTGGAGCCTGACACCCAAGAGCACACAGGTAGCTGAAAGCACTTGTGTGCCTGAGTCATTCTTGAGTCCCTGGGGGCTGGGCTCTCCAGAAAGGCCTGGGGGTCATACACAGGCCACAGAAATGTCTTTTAAGTAGCAGCTACAGTGGGTGTGCTCCAGGCTCCAAGAACCCCTCGGAGCCTGTCTCAAATCTGTGCCTCTCATGCCCTCCTCTGCCTCAGTCTCCCTGCTGTGTAGAACGAGGTGACCTGACTGTTCTGAGGAACAGTCCAACTATATGAACTACTTTCCCAGGTGTGGCAGCCAGCCCTGCGAAGTCAGAACACAGCCACCAAGACAGTAGTGTGCGTGAGCAGGTGGCTCCAGGGGGAGGCAGGGCTAGGAGAGTAGAGTGTCTTGAGATGGAGCTGCATGTCAGACTCTGGCATGCTGAGGCCATGGAGCAGGGAATTGGCTGTGAAGGGTGTGGCCTTAGGGCTGCTGAGTCCTTCCCACTGCATGGTACCTTCCCCTGTTGGCTATGGAGCTTTTCCTGAGGTACCCAGGAGCCACGCAGGCCACCTGCTTACCTGTACATGGTGGGTCGCGGCCCCTCCCCAGACATGAGTGCAGCACTCTGTCTTGCCGGCTGCTGGTCGGGCCTCGGGAGGATGAGCCGCTGTCATTGTTTCGCTTTGATCCCGCAGACTGGCTGCGGAGCCTTCCAGGATCAGCTGTTGAATGTCTCCTCTGTGCAGGTGCTTACACTAGTCCTCTCATCTGAAAGATAAGCATTAATGACGAAAGTATTAGCTGCTATTACCAAGTTCCTCCTGTGTCACCTGCCCCAAGCCCAGCCTATGTGCAACCACCCTGGGAGGTGGGTCCCTGTCCCCCATAGGTGAGTGAACAGGTTCAGAAGGTGACATGACTCACCAGCAGGCACAGAGAGGGGCAGAGTGGGCTGGGACGTGCTTCCCTGCATCTCTCTGGCTTCCAGAGGCAGAGTGGGGTCATAGTTGAGGCAGCCACAGGGGTGCAGACCTGCCCAGAGTACCCGCTTAGCTGCTTGCTCTTTTCTAG
Seq C2 exon
CTGAAGGCCGTGCACGAACAGCTGGCTGCCTTGTCTCAGGCCCCAGTGAACAAACCAAAGAAGAAGAAAGAGAAGAAGGAAAAGGAAAAGAAGAAGAAAGACAAGGACAAAGACAAAGAGAAGGAGAAGCACAAGGCCAAGTCTGAGGAGGAGAAGAAGGCCAAGGCAGCCCCAGCAGCCAAGCAGGCCCAGCAGAAAAAGGCTCCCACCAAGAAGGCCAACAGCACAACCACAGCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026918:ENSMUST00000028282:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.877 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGAGGTTTGCCAAGATGCCC
R:
TGGCCTTCTTCTCCTCCTCAG
Band lengths:
343-1581
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types