MmuINT0048115 @ mm10
Intron Retention
Gene
ENSMUSG00000001482 | Def8
Description
differentially expressed in FDCP 8 [Source:MGI Symbol;Acc:MGI:1346331]
Coordinates
chr8:123456406-123456784:+
Coord C1 exon
chr8:123456406-123456533
Coord A exon
chr8:123456534-123456670
Coord C2 exon
chr8:123456671-123456784
Length
137 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGT
5' ss Score
8.54
3' ss Seq
CTCAGCTACCTGCCCTGCAGGTG
3' ss Score
8.25
Exon sequences
Seq C1 exon
GAGGTGTGCCTAGTGAGGCCCGGCAGTGTGACTACACGGGCCAATACTACTGCAGCCACTGCCACTGGAACGACCTGGCTGTCATCCCCGCGAGAGTGGTGCACAACTGGGACTTTGAGCCACGCAAG
Seq A exon
GTTAGTTTTGGAGATACGGTGGTTGGTGGGGGGCGGGGGGTGGTGGAGTGGAGGCTTGGAGGTGAGGGGGGCAGGGAGAAGATGGGCGTGACCAGTCCTAGCTCTGCAAGCTGGTCACTCAGCTACCTGCCCTGCAG
Seq C2 exon
GTGTCCCGTTGCAGCATGCGCTACCTGGCACTGATGGTGTCTCGGCCAGTGCTCCGGCTCCGGGAGATTAACCCTTTGCTGTTTAACTACGTGGAAGAGCTGGTGGAGATCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001482:ENSMUST00000065534:7
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:
PF139011=DUF4206=PU(17.1=81.4)
A:
NA
C2:
PF139011=DUF4206=FE(18.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTAGTGAGGCCCGGCAG
R:
CCGGATCTCCACCAGCTCTTC
Band lengths:
234-371
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