MmuINT0025749 @ mm9
Intron Retention
Gene
ENSMUSG00000029279 | Brdt
Description
bromodomain, testis-specific [Source:MGI Symbol;Acc:MGI:1891374]
Coordinates
chr5:107788599-107789006:+
Coord C1 exon
chr5:107788599-107788724
Coord A exon
chr5:107788725-107788790
Coord C2 exon
chr5:107788791-107789006
Length
66 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
TAACGCTCCCTGTTTTGCAGTGG
3' ss Score
6.84
Exon sequences
Seq C1 exon
CAAAGAAGGTTGTCAGGTCTAAGGAGGAGCTCCATTCTGAAAAAAAGCTGGAGCTGGAGAGGCGGTTGCTGGACGTCAACAATCAGCTGAATTGTAGGAAACGGCAAACGAAACGTCCAGCAAAAG
Seq A exon
GTAGGTGGCGGTTTCTCCGCGCCCACCCGTGAGCCATGACCGCTGTTAACGCTCCCTGTTTTGCAG
Seq C2 exon
TGGAGAAGCCGCCCCCGCCCCCGCCCCCGCCCCCGCCCCCGCCGCCTCCCCCGGAGCTGGCCAGTGGGTCTCGCCTGACCGACAGCAGCAGCAGCAGCGGCAGCGGCAGCGGCAGCAGCAGCAGCAGCAGCGGCAGCAGCAGCAGCAGCAGCTCCTCGGGGTCCGCGAGCAGCAGCAGCGACTCGAGCTCCTCCGACAGCAGCGATTCTGAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029279-Brdt:NM_054054:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGCTGGAGAGGCGGTT
R:
GCTGCTGCTGTCGGTCAG
Band lengths:
169-235
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: