MmuINT0175247 @ mm10
Intron Retention
Gene
ENSMUSG00000035295 | Wdr38
Description
WD repeat domain 38 [Source:MGI Symbol;Acc:MGI:1923896]
Coordinates
chr2:39000617-39000981:+
Coord C1 exon
chr2:39000617-39000748
Coord A exon
chr2:39000749-39000831
Coord C2 exon
chr2:39000832-39000981
Length
83 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGC
5' ss Score
8.72
3' ss Seq
GCTCAGGAATGTCTCTTTAGGCA
3' ss Score
2.49
Exon sequences
Seq C1 exon
GCCACTGGTTCCTGGGACTCGACTGTGCACATATGGGACTTGCGGGCATCCACCCCAGTTGTGTCCTACCACAATCTGGAGGGCCACACTGGCAACATCAGTTGTTTGTGTTACTCAGCATCTGGTCTCTTG
Seq A exon
GTAAGCTAGGCTGACTGGGGCTCCAAGACCAAGGCCAGCCCGTTTGCCTTTGGGGGTCACTGAGCTCAGGAATGTCTCTTTAG
Seq C2 exon
GCATCTGGCTCTTGGGACAAGACCATCTGTGTCTGGAAGCCTACAACCAACAACCTGCCTCTTCAGCTCAAGGGCCATACCATTTGGGTGAATAGTCTAGCCTTTTCTCCTGATGAACTGAAGTTAGCCAGTGCTGGTTACTCTCGTACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035295:ENSMUST00000112872:6
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(30.8=27.3),PF0040027=WD40=PU(62.2=52.3)
A:
NA
C2:
PF0040027=WD40=PD(32.4=24.0),PF0040027=WD40=PU(84.2=64.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGGACTCGACTGTGCACATA
R:
GCAGGTTGTTGGTTGTAGGCT
Band lengths:
178-261
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