MmuINT0025748 @ mm10
Intron Retention
Gene
ENSMUSG00000029279 | Brdt
Description
bromodomain, testis-specific [Source:MGI Symbol;Acc:MGI:1891374]
Coordinates
chr5:107359193-107359705:+
Coord C1 exon
chr5:107359193-107359473
Coord A exon
chr5:107359474-107359579
Coord C2 exon
chr5:107359580-107359705
Length
106 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
GGTTGCTCCTCCTCTCACAGCAA
3' ss Score
7.24
Exon sequences
Seq C1 exon
TCAACCAAAGAAGAAGAAGCCGCTTTTGAAATCGGAAGAGGAAGACAATGCGAAGCCTATGAACTACGATGAGAAAAGGCAGCTGAGCTTGGACATAAACAAACTGCCTGGAGACAAGCTTGGTCGAATAGTTCACATAATACAGTCAAGGGAGCCTTCCCTGAGAAACTCCAACCCGGACGAGATCGAGATCGACTTTGAGACCCTGAAGGCATCCACACTTAGAGAACTGGAGAAGTATGTCCTGGCCTGTCTGAGGAAGAGGTCGCTGAAGCCCCAAG
Seq A exon
GTAGGCCAGGCCCAGCCCCATCCCTAGGTCCCGCCCCATCTTGCCTCTAGGCCACGCCCCACCTCCAGGCCCCTCCCCGCACTCACGGTTGCTCCTCCTCTCACAG
Seq C2 exon
CAAAGAAGGTTGTCAGGTCTAAGGAGGAGCTCCATTCTGAAAAAAAGCTGGAGCTGGAGAGGCGGTTGCTGGACGTCAACAATCAGCTGAATTGTAGGAAACGGCAAACGAAACGTCCAGCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029279:ENSMUST00000031215:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.705 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCTTCCCTGAGAAACTCCA
R:
GACGTTTCGTTTGCCGTTTCC
Band lengths:
246-352
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