MmuINT0175242 @ mm9
Intron Retention
Gene
ENSMUSG00000035295 | Wdr38
Description
WD repeat domain 38 [Source:MGI Symbol;Acc:MGI:1923896]
Coordinates
chr2:38853829-38854923:+
Coord C1 exon
chr2:38853829-38853996
Coord A exon
chr2:38853997-38854802
Coord C2 exon
chr2:38854803-38854923
Length
806 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TTTTTGCCCTGTACTTTCAGGTC
3' ss Score
11.26
Exon sequences
Seq C1 exon
AGTTTCCCTTTCCCTTCTGCCCTGTTAGGAACGGAGGCCCCTCCGACGGGACTGGTGCCCGCTTAGGAGGGAGCCCTCCGGGTTATGGAGTGGGCGCCCATGAACATCAGAGCCCCAACAAGATTGGCCGTGGGCAGAGTGAGGTTTTATGGTCAACACCACGGGGAG
Seq A exon
GTGAGGCCCCAGTGCTCTTCTTACACAGGCTTGGTGGGGTCAGACCCCAACTCAAGAATAGACCCTAGGTTTATTTTTTCTTTTTTGTTTTGAGACAGGGTTCACTATGTGGCTGGCCTTGAACAGAGATCCATCTGCCCCTGCCTCCCTAGTGCTGGGATTCCGGTGTAAGCACCAGGTTTTTCCCCATGCATGGTTTGTTTGTTTATTTGGTTTTTCATGACAGGGTTTCTCTGTTAGTCCTGTCTGTCCTGGACCTCACTCTGTAGACCAGACTGGCCTCGAACTCAGAAATCCACCTGCCTCTGCCTCCCAAGTGCTTGGATTAAAGGCGTGCACCACCAATGCTCGGCTTGCATGGTTCTTTTTTTAAAGCCGGTGGTAGCACAGGCCCTTAATCCCAGCACTCGGTCGGCAGAGGCAGAAGGATTTCTGCGTTCAAGGCTAGCCTGGTCTAGAAATGTAGCGGGTTTTCCCAGGAACTCTTCACGTAAACAAGATTTCAAGCTCTCACAGATCTGCTTTGTCTTTTGAGGCAGCATTAGGCTGGTCTCAAACTTCAGGCAGTAGTCTTCCCTGGGGCTGGGCTCAAAGGTGTGCATCGTTATTTCTAGCTTAGATTCAATGCTTAGGGTTAACTTTGAGCTTGTCAATTTTTGACCTAGAACTTGCTTTTGCATGGCTGTGGAGTGGGACCTGGAGTTTATGGCCCTACCCGGGCTTCCTGGACAGATTAGGGATGGTTAGAGCTGAGAGGACAAATGACTCCAGACAGGCATAGGACTATTTTTGCCCTGTACTTTCAG
Seq C2 exon
GTCAACTGCTCTGCCTTCTCTCCTGACGGCCGGACCCTGCTCACAGCCTCAGATGATGGCTGTGTGTATGTATGGGGGACAAAGAGTGGGCGACTGCTATGGAGACTGGCAGGCCACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035295-Wdr38:NM_029687:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0040027=WD40=PU(27.0=35.7)
A:
NA
C2:
PF0040027=WD40=PD(67.6=61.0),PF0040027=WD40=PU(28.2=26.8)
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:
GTTTCCCTTTCCCTTCTGCCC
R:
CCTGCCAGTCTCCATAGCAGT
Band lengths:
280-1086
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: