MmuINT0175243 @ mm10
Intron Retention
Gene
ENSMUSG00000035295 | Wdr38
Description
WD repeat domain 38 [Source:MGI Symbol;Acc:MGI:1923896]
Coordinates
chr2:38999283-39000089:+
Coord C1 exon
chr2:38999283-38999403
Coord A exon
chr2:38999404-38999972
Coord C2 exon
chr2:38999973-39000089
Length
569 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CCTTGTGTTCTCTGCCTCAGGCC
3' ss Score
10.43
Exon sequences
Seq C1 exon
GTCAACTGCTCTGCCTTCTCTCCTGACGGCCGGACCCTGCTCACAGCCTCAGATGATGGCTGTGTGTATGTATGGGGGACAAAGAGTGGGCGACTGCTATGGAGACTGGCAGGCCACAGAG
Seq A exon
GTGAGGCTCAGGCACATGGCTGGAGAGACTCTAGGGCTCTGTGCTGACATTGAGCCTCCTGTGGTGACATAGGACTTTGGGTTGGAGGAGTCCAGCAGAGGCAGCTGGATAGGGTGACACTAAACCTAACACTCAGGGGCTCTTGCAGCAGAGCTACTCATAAAACACACCCCTCCCGATGTAGTTTTACCTCTAGGAGCTTCCCCAGAGCGGGATAAATGTTTGAAAGGCTTATTCCAGTCAGTCTCTTGTCAAGGTCACCCACGTGAACTTGTCAGACTGCTTTTGGTCCTATTACCTCAACCCTTGACACGGGACTTTGCCATGCAAGCAGGGTACCTGACCTATTGAGATCCAGGAAGCAGTGGTGGTAGAGGGTGACTCACACCAAAGACCCTAGCTGGGGCAGTGAGTATGGTTCTGGGAGCAGGGATCTAGATTGGTCGATGCCCCCCAGATGGGCAAGCAGATCCAGCTGAACCCAGCTCAGGCCAGGCCTTGTGGTTGGAACTACAGATAACAAATCTGGACCTGGAGGGCAGGACAGTGCCTTGTGTTCTCTGCCTCAG
Seq C2 exon
GCCCAGTGAAGTCTTGCTGTTTCTCTCCCGATGGCCGCCTCATTGCCAGCTCCTCCAGTGACCACAGCATCCGCCTGTGGGATGTGGCAAGGTCCAAGTGTCTACATGTGCTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035295:ENSMUST00000112872:2
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(67.6=61.0),PF0040027=WD40=PU(28.2=26.8)
A:
NA
C2:
PF0040027=WD40=PD(69.2=67.5),PF0040027=WD40=PU(20.5=20.0)
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:
GTCAACTGCTCTGCCTTCTCT
R:
CTTTCAGCACATGTAGACACTTGG
Band lengths:
238-807
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