MmuINT0025659 @ mm10
Intron Retention
Gene
ENSMUSG00000024335 | Brd2
Description
bromodomain containing 2 [Source:MGI Symbol;Acc:MGI:99495]
Coordinates
chr17:34113570-34114177:-
Coord C1 exon
chr17:34113932-34114177
Coord A exon
chr17:34113833-34113931
Coord C2 exon
chr17:34113570-34113832
Length
99 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAT
5' ss Score
7.25
3' ss Seq
TTCACCTTTTTCCTGTATAGCTT
3' ss Score
9.81
Exon sequences
Seq C1 exon
GATGTGTTTGAGTTTCGCTATGCCAAGATGCCAGATGAGCCACTGGAACCAGGACCTCTACCAGTCTCTACTGCCTTGCCTCCTGGGTTGACCAAATCCTCTTCAGAGTCCTCCAGTGAGGAAAGTAGCAGTGAGAGTTCCTCTGAGGAAGAGGAGGAGGAGGAAGAAGATGAGGACGAGGAGGAGAGTGAAAGCTCAGACTCTGAGGAGGAAAGGGCTCATCGCCTAGCAGAGCTGCAGGAGCAG
Seq A exon
GTAGATCATTGTGTTGTGCTCTGTAATTGGGTAAGAACTTGGACTAAGTTAAGACCAAGAAACAATTGGGATCAACAATTTCACCTTTTTCCTGTATAG
Seq C2 exon
CTTCGGGCAGTTCATGAACAACTGGCTGCCCTGTCCCAGGGCCCAATATCTAAGCCCAAGCGGAAGAGAGAGAAAAAGGAAAAAAAGAAGAAACGGAAGGCAGAGAAACATCGTGGCCGAATTGGGATCGATGAAGATGATAAGGGGCCTAGGGCACCTCGCCCACCTCAGCCCAAGAAATCTAAGAAAGCAGGTGGTGGGGGTAGCAATGCTACTACACTCAGCCATCCTGGCTTTGGGACTTCCGGAGGAAGTAGCAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024335:ENSMUST00000025193:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.900 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0043920=Bromodomain=PD(30.2=15.7),PF062846=Cytomega_UL84=FE(71.3=100),PF060886=TLP-20=FE(78.8=100),PF0105613=Myc_N=PU(82.0=98.8),PF045468=Sigma70_ner=PU(72.7=77.1)
A:
NA
C2:
PF090735=BUD22=FE(27.2=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:
TGAGGAAGAGGAGGAGGAGGA
R:
TCTCTTCCGCTTGGGCTTAGA
Band lengths:
172-271
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