MmuINT0025657 @ mm10
Intron Retention
Gene
ENSMUSG00000024335 | Brd2
Description
bromodomain containing 2 [Source:MGI Symbol;Acc:MGI:99495]
Coordinates
chr17:34114350-34115264:-
Coord C1 exon
chr17:34114890-34115264
Coord A exon
chr17:34114479-34114889
Coord C2 exon
chr17:34114350-34114478
Length
411 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCC
5' ss Score
9.16
3' ss Seq
CATGCTGCCTCCTTCTGCAGCGG
3' ss Score
10.59
Exon sequences
Seq C1 exon
AAAAAAGGCGTTAAACGGAAAGCGGATACTACCACCCCTACACCCACAGCCATCCTGGCTCCTGGTTCCCCAGCTAGTCCTCCTGGGAGTCTTGAGCCAAAGGCAGCAAGGCTCCCTCCTATGCGCAGAGAGAGTGGCCGCCCAATCAAACCCCCACGAAAAGACTTGCCTGACTCGCAACAGCAACACCAGAGCTCTAAGAAAGGGAAGCTGTCAGAGCAGTTAAAGCACTGCAACGGCATCCTGAAGGAACTGCTCTCAAAGAAGCACGCTGCCTACGCCTGGCCCTTCTATAAGCCAGTGGACGCTTCTGCTCTTGGCCTTCATGATTACCATGACATCATTAAACACCCCATGGACCTCAGCACTGTCAAG
Seq A exon
GTACCCACTGCATGGGGCAGATGGGCTGCTCAGGCAGGGGCTGGAGCCTGGGGACCAATAAAGCAATACCCATGTCTCCTCATGGGAACATGGCAGTTTTTCATTCTGTGTATCTTACAAAGTTGTACAAAGTCACATACTTTGAAGTCCTTGTTTTTTACAGTTAAGGATAAGTGTGGGGTTAGGGAAATGTAATGGGAGAGAGATGGCCTTGGTCACTTAGAAATGTTTTCTTCTAGACATAGATATTTCTTCAAACCTACCCCAAATCTTTGGACTTCAAACTTGAACCCCAGGGCACAGATCCCTAAGGTCATCCCCACTTGTTTCAAGAGAGGGCTGCTTGAGTCGGGTTGGCAGGGAAAGATGAGACTCTGCCTGTGCAGCTTCTCATGCTGCCTCCTTCTGCAG
Seq C2 exon
CGGAAGATGGAGAACCGTGACTACCGGGATGCACAGGAGTTTGCTGCTGATGTACGGCTTATGTTCTCCAACTGCTATAAGTACAATCCTCCAGACCACGATGTTGTGGCTATGGCACGAAAGTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024335:ENSMUST00000025193:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.619 A=NA C2=0.331
Domain overlap (PFAM):
C1:
PF0043920=Bromodomain=PU(67.4=96.7),PF062846=Cytomega_UL84=PU(24.3=93.3),PF060886=TLP-20=PU(10.6=36.7),PF0105613=Myc_N=PU(0.1=0.0)
A:
NA
C2:
PF090735=BUD22=FE(13.1=100),PF0043920=Bromodomain=PD(44.9=93.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCAATCAAACCCCCACGAAA
R:
TCGTGCCATAGCCACAACATC
Band lengths:
355-766
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