MmuINT0175907 @ mm10
Intron Retention
Gene
ENSMUSG00000026988 | Wdsub1
Description
WD repeat, SAM and U-box domain containing 1 [Source:MGI Symbol;Acc:MGI:1919387]
Coordinates
chr2:59861561-59862726:-
Coord C1 exon
chr2:59862620-59862726
Coord A exon
chr2:59861738-59862619
Coord C2 exon
chr2:59861561-59861737
Length
882 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
CCTGCTGTGTTTTAAAGCAGGAA
3' ss Score
6.36
Exon sequences
Seq C1 exon
GTATGTTACGACTTGTGCGTTTGCACCCAACACTCTCTTACTTGCTACTGGTTCAATGGACAAGACAGTGAACATTTGGCAGTTTGACCTGGAAACACCTTGCCAAG
Seq A exon
GTCAGTAAGATGACCCCATCCTTGTTTGTTCTGTGGTACTCTCAGACCCAGGGCCTCCGTCCTGCTGGGCAAGTGCTCTCTGCAAACTCCAGCCCCAGGCCAATCGATGAGCATCCTTAACCCATGTCAACACTAATCAGAAATCTGGGGGGTACTTTCTTTGTTGTGGTTCTGGGGATCGAACCTGCATGCTCTACCTCAGAGCTATACTCCCAAGCCTAAACTTTAATAAGTCCTTTGGCATGCTATTCATAGTGCCTTTCTCAACACACCGTACAGATTCAAATTCAGTATACCATAAAACTAATTTTAGAGGGTCCTGTGTTAGACTGGTGTTAAATGCTTGCATGTACATTCACGTGTGTCTCGATGCCCATGGTTTTTACATTGTTTATGTTTGGAGCTAGGTTTTTCTGGTAAATGTAGCCTGAGGACAGAATAGGAATTACAGATTTACCGTGCTGGCTTTCTTCCTTGGCCTCACCGAGAAACACAGCCTACAGCTTAGGCGATTCACATTGAGCACTGTCAGCAGTGACAATATGCTATGCTGATATGCAGGTGACAGAGCAAGCTGAATTTCCCTTCACTGGTGGGAGGATTATAGTGTGAAGAAAAATTGGACTAGAAGCGAAGGTCAATGTGGCTGGCATGCACGAGGCGCGAGATTTGTTCCCCAGCACCACAAAATCAAAAATTGTCTTTCTGCAGTGAAGAAGAAGTTCATAAAGAATAGCATTTCCTGTAGCATTTGCTCACTACTGTAAGAGCTGCTACACTTCTTAGAAGGAAGTGTATGCTGTCCAGTGTGTCCAAAGTGGGACTGTCTGGAGAAGCAGTATGTGGTTTGCCATTCACATGGCCTGCTGTGTTTTAAAGCAG
Seq C2 exon
GAAGCATGAACGACCCGCTGAAACATTTCACTGAAGAATGGTCAGAGGAGGATGTCTCCGTGTGGCTTCGTGCTCAAGGCTTGGAAGACCTCGTCGGTATTTTCAGGGCAAACAACATCGATGGGAAAGAACTATTGCATCTCACAAAGGAAAGTCTGGCTGGTGATTTGAAAATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026988:ENSMUST00000028368:8
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=0.029
Domain overlap (PFAM):
C1:
PF0040027=WD40=PD(69.2=73.0)
A:
NA
C2:
PF0764712=SAM_2=PU(74.2=81.7)
Main Inclusion Isoform:
NA
Other Inclusion 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:
TGTTACGACTTGTGCGTTTGC
R:
CGATTTTCAAATCACCAGCCAGAC
Band lengths:
281-1163
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