MmuINT0120085 @ mm9
Intron Retention
Gene
ENSMUSG00000039934 | Pion
Description
pigeon homolog (Drosophila) [Source:MGI Symbol;Acc:MGI:2442259]
Coordinates
chr5:20795607-20795962:+
Coord C1 exon
chr5:20795607-20795708
Coord A exon
chr5:20795709-20795862
Coord C2 exon
chr5:20795863-20795962
Length
154 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
GGGAGTGTTTTCCCTTTTAGCCT
3' ss Score
6.48
Exon sequences
Seq C1 exon
CTTATTGGCCAGAAGGTCTGCCGGCTTTGGGACCACCCCATGAGTTCCAATATCATTTCACGGAACCATGTGGCCCGGCTGCTGAAAAACTACAGGAAAGAG
Seq A exon
GTGAGTCCGAGTAAGCCCAGATAGAAAGCACTCTTCAGAGCCCACCCGCCATGTCAATAAGCCCAGGTAGACAGTTATGGTTTTTATTATTTTATTTAAAGTTGGGCGTTTCTTGGAGAAGCAATTCATATGTAGGGAGTGTTTTCCCTTTTAG
Seq C2 exon
CCTCGGAACTCCATGATTGACAAATCATCATTTCCGGTAGAATTTCTGCCTCTGAACTACTTCATCGAAATTCTGATGGGCCTGGAGTCCTCCAACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039934-Pion:NM_175437:29
Average complexity
IR-S
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:
PF056127=DUF781=FE(37.1=100)
A:
NA
C2:
PF056127=DUF781=PD(13.5=35.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
CTTATTGGCCAGAAGGTCTGCC
R:
GAGGACTCCAGGCCCATCAG
Band lengths:
194-348
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: