MmuINT0175245 @ mm10
Intron Retention
Gene
ENSMUSG00000035295 | Wdr38
Description
WD repeat domain 38 [Source:MGI Symbol;Acc:MGI:1923896]
Coordinates
chr2:39000178-39000536:+
Coord C1 exon
chr2:39000178-39000275
Coord A exon
chr2:39000276-39000455
Coord C2 exon
chr2:39000456-39000536
Length
180 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
AGCTCAGACTCTCTCTACAGTCT
3' ss Score
4.92
Exon sequences
Seq C1 exon
GTCACCAGAGGAGTGTGGAAACTGTCAGCTTCAGCCCGGACTCCAAGCAGCTGGCATCAGGTGGTTGGGACAAGAGAGCGATTGTCTGGGAAGTGCAG
Seq A exon
GTATGATGCAGGTGTTCAGAGGGGACCAGATACACCCTTTGCTCTTAGTGCCTCCCCTACTCTCTCCCCACACCCAATCAGATGCAGGTTCCAGCTAAAGCCACAGCAGGAAGGGCAATGCCTGGGAAGTTTGGGAGCAACCAGGCCCCTCCACCCCTGCAGCTCAGACTCTCTCTACAG
Seq C2 exon
TCTGGCCGCAGGGTGCACCTCTTGGTTGGGCATTGTGATTCCATCCAGAGCAGTGACTTCTCTCCAACCTCGGATTCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035295:ENSMUST00000112872:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0040027=WD40=PD(76.9=90.9)
A:
NA
C2:
PF0040027=WD40=PU(64.1=92.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCACCAGAGGAGTGTGGAAACT
R:
CAGAGAATCCGAGGTTGGAGAG
Band lengths:
178-358
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