MmuINT0046880 @ mm10
Intron Retention
Gene
ENSMUSG00000041966 | Dcaf17
Description
DDB1 and CUL4 associated factor 17 [Source:MGI Symbol;Acc:MGI:1923013]
Coordinates
chr2:71055744-71056598:+
Coord C1 exon
chr2:71055744-71056119
Coord A exon
chr2:71056120-71056494
Coord C2 exon
chr2:71056495-71056598
Length
375 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACG
5' ss Score
7.66
3' ss Seq
AAATTCTTTGTGTCTTTCAGGAG
3' ss Score
9.48
Exon sequences
Seq C1 exon
GGAGAGGGAGTGGATACGGAGGGCCGCGAGGTGCAGCGTTAATCCCGAGAGCAGAAAGAAGGGCCAGGAAGGCGCCGTTGATTCTGTTCCTTTGCGTCAAATCCGTGTGTCGCTACCTCTTGATCTCTGCCCCGAGTCCCCAGCGCGGGGTCCCGCGTCAGCCTTCCTTTGAGGTTCGCAGGTGGCGGCTGCCACCCCTCGCGGAAGTGAGGGGCGCGCCCCTCCTGGGCCCTGCGGACCCCTAGTCTCCATGGGCCGGACCCGGAAGGCCAATGTGTGCCGCAGGCTGAGTCGCCGGGCTCTGGGCTTCTATGCACGCGACGCAGGCGTGGTGCAGAGGACGAACCTGGGCATCCTGCGGGCGCTGGTGTGCCAG
Seq A exon
GTGACGCCCGCCGAAGTCGGGGTGCCCGGGGTCCAACCTCCTGCCGGGCTGCAGTTTTTTACGCGCTCTGATACCCCTTTGAGGGTCTTACGTGGGGAGGGGCATCCGTGTCCCGCAATTAGGGTATTAGAAAATAGGTACTCAGGTCCGCCGCCTGGCGTAGTTTTTAAAAAGCTTCTTTTGCCTTCCTGCAAACAATCGATTCAAAACTTGGGCATCCAACTAAACCGACATCTATGGGCAGAGGGAGAAAAAAAAAAAAAAAAAAGGAGAAACAATGTACTTTAAAACTGTAGATTTCAACTACCCACCGAAAATGGTTCCATAGCAGGGGACTGAGTTCTTTCCTAAACTGAAATTCTTTGTGTCTTTCAG
Seq C2 exon
GAGAGTACTAAATTTAAGAATGTTTGGACAACTCATTCCAAGTCACCTATAGCCTATGAGAGAGGAAGAATATATTTTGACAATTACCGGTGCTGTGTCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041966:ENSMUST00000154704:1
Average complexity
IR
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTGATCTCTGCCCCGAGTC
R:
ACACAGCACCGGTAATTGTCA
Band lengths:
357-732
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