MmuINT0019418 @ mm9
Intron Retention
Gene
ENSMUSG00000000325 | Arvcf
Description
armadillo repeat gene deleted in velo-cardio-facial syndrome [Source:MGI Symbol;Acc:MGI:109620]
Coordinates
chr16:18403419-18403832:+
Coord C1 exon
chr16:18403419-18403617
Coord A exon
chr16:18403618-18403720
Coord C2 exon
chr16:18403721-18403832
Length
103 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
CCTGGCTGCTGCTGCTGCAGCCA
3' ss Score
4.61
Exon sequences
Seq C1 exon
GGAGCTATGCCATGACAGAGCTGGTTCGGAATGTTCGCAATGCACAGGCTCCCGCTCACCCCAGTGCCCACCTGGAGGAGGATACTGTGGTTGCCGTGCTCAACACCATCCATGAGATCGTGTCCGACAGCCTGGACAATGCTCGCTCCCTCCTGCAGGCCCGTGGTGTGCCTGCCCTGGTAGCACTTGTGGCCTCCAG
Seq A exon
GTGGGTGAGGGCAGGGCCTGCTGAGGGTCGGGTGGGTTTGGGGATGGAGGGAGACTAGGATGCGGTAGGCCACTGACCCCAGCCCTGGCTGCTGCTGCTGCAG
Seq C2 exon
CCAGTCAGTGCGGGAGGCCAAGGCAGCATCACACGTGCTACAGACTGTATGGAGCTACAAGGAGCTGCGTGGAGCCCTGCAGAGGGATGGCTGGACGAAGTCACGCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000325-Arvcf:NM_033474:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.134 A=NA C2=0.173
Domain overlap (PFAM):
C1:
PF0245312=Reticulon=FE(91.7=100)
A:
NA
C2:
PF0245312=Reticulon=PD(4.2=7.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGCTATGCCATGACAGAGC
R:
GTCTGTAGCACGTGTGATGCT
Band lengths:
244-347
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: