MmuINT0004959 @ mm9
Intron Retention
Gene
ENSMUSG00000070332 | 4933422H20Rik
Description
RIKEN cDNA 4933422H20 gene [Source:MGI Symbol;Acc:MGI:3588186]
Coordinates
chr11:115301859-115302064:+
Coord C1 exon
chr11:115301859-115301920
Coord A exon
chr11:115301921-115302020
Coord C2 exon
chr11:115302021-115302064
Length
100 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
TCTTTTCCTTCTTGGCACAGGGC
3' ss Score
8.49
Exon sequences
Seq C1 exon
AGAGAGACCATGAAACAGCGGCCACAGAGAAAGGAGAGAAGACGGCAATCATCGGTCCACAG
Seq A exon
GTAGGCACAAGAGGATGCGGGACGCCCTCAGAGCTGGTGAGGGAGGCTGCCGTAGGTCCTGGTACCTGAGTCTCTGTGGGTCTTTTCCTTCTTGGCACAG
Seq C2 exon
GGCAACAAAATATCTGGCTCTCATGGACATGCAGAAGATCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070332-4933422H20Rik:NM_001033775:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.944 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGAGACCATGAAACAGCGG
R:
TTGAGATCTTCTGCATGTCCATGA
Band lengths:
106-206
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: