MmuINT0005467 @ mm9
Intron Retention
Gene
ENSMUSG00000054672 | 5830411N06Rik
Description
RIKEN cDNA 5830411N06 gene [Source:MGI Symbol;Acc:MGI:2443685]
Coordinates
chr7:147482185-147482898:+
Coord C1 exon
chr7:147482185-147482502
Coord A exon
chr7:147482503-147482583
Coord C2 exon
chr7:147482584-147482898
Length
81 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
CTGACTGCGTCTCTCCACAGGGA
3' ss Score
11.66
Exon sequences
Seq C1 exon
GTCTCCAGGATGCCCTTCGGCTGAGGGAGGGACAGAGTCACTGTGATGGCCGAGTGGAGGTCTTCCTGGATGGCACGTGGGGTCGTGTGCTGGACAGTGCATGGGACCTGCGTGATGCTGCTGTGGTGTGCAGGCAGCTTGGGTGCGGAGAGGCACAGCTAGCCTATGATGCGCCAGCACCAGGCCATAAGACCATTCCTGTGGGGCTGAGTCTGGTGCACTGCTTGGGCTCTGAGACCCACCTGACCCAGTGCAATGTATCTGCTTCTCTGCTGGTTCATGCAGGGACTTTGCGGGATGCAGGAGTGGTGTGCTCGG
Seq A exon
GTGAGTGTGAGGTGTCCACTTGCCCACCCCACCCTGCTCTGTTCATGTAGTCCAGTGTGTTCTGACTGCGTCTCTCCACAG
Seq C2 exon
GGAGCTTGCACATACGGTTGGCAGCGGGTAAGAACCGCTGTGCTGGGCGTGTTGAAGTATTCTATCAGGGCACATGGGGCACCGTATGTGATGATGCCTGGGACCTGCAGGATGCCCATGTGGTCTGCAGGCAGCTGGGCTGTGGTCATGCCCTCAGTGCCCCTAGGGCTGCCCACTTTGGAGCAGGAACTGGGCGCATCTGGATGGATGAACTGGGCTGCATGGGTGAGGAGGCTGCTCTATGGGAGTGCCAGTCAGGAGGCTGGGGCCAACAAGATTGTGGGCACAAGGAGGATGCAGGCGTCATCTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054672-5830411N06Rik:NM_001128145:6
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:
PF0053013=SRCR=WD(100=91.6)
A:
NA
C2:
PF0053013=SRCR=WD(100=92.5)
Main Inclusion Isoform:
NA

Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAGTCTGGTGCACTGCTTG
R:
ATACTTCAACACGCCCAGCAC
Band lengths:
172-253
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: