MmuINT0025650 @ mm9
Intron Retention
Gene
ENSMUSG00000024335 | Brd2
Description
bromodomain containing 2 [Source:MGI Symbol;Acc:MGI:99495]
Coordinates
chr17:34249801-34250426:-
Coord C1 exon
chr17:34250122-34250426
Coord A exon
chr17:34249924-34250121
Coord C2 exon
chr17:34249801-34249923
Length
198 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
TCCTGACTTTCCCCCTCCAGCTA
3' ss Score
9.45
Exon sequences
Seq C1 exon
GCTACCTAAAAAGTCTCAAAAGACAGCTCCACCTGTCCTTCCCACTGGCTATGATTCTGAGGAGGAGGAAGAAAGCAGGCCCATGAGTTATGATGAGAAGAGACAGTTAAGCCTGGATATCAATAAGTTACCTGGGGAAAAGCTGGGTCGAGTAGTACATATCATCCAAGCCAGGGAACCCTCTCTACGTGATTCAAATCCAGAAGAAATTGAGATTGATTTTGAAACACTCAAGCCGTCCACACTTAGAGAGCTTGAGCGATATGTTTTATCCTGCCTTCGAAAGAAACCCCGGAAGCCCTACA
Seq A exon
GTGAGTATCAGATGATTGATGTCCATCAGTCAACACTGCTCCACAGTAGTACTTGTGAGGACAGCAAGATGTGGGGGTCTGGTGTGTGTGTGTTTGTGGCAAGCAGCATCCAGGATGACTGGGCTGCTTCAGGAATGGAAGTTGGCGACTCTGGGGGAAGACTTGGCAATAGAGTGAGTCCTGACTTTCCCCCTCCAG
Seq C2 exon
CTATTAGGAAACCTGTGGGAAAAACAAAGGAGGAACTGGCTTTGGAGAAGAAGCGGGAGCTAGAGAAGCGGTTGCAGGATGTCAGTGGACAGCTCAACTCCACCAAAAAGCCTCCCAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024335-Brd2:NM_010238:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.816 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF090735=BUD22=PD(13.1=40.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTACCTGGGGAAAAGCTGGG
R:
TCTAGCTCCCGCTTCTTCTCC
Band lengths:
243-441
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: