MmuINT0064481 @ mm9
Intron Retention
Gene
ENSMUSG00000014778 | Fhod1
Description
formin homology 2 domain containing 1 [Source:MGI Symbol;Acc:MGI:2679008]
Coordinates
chr8:107861023-107861329:-
Coord C1 exon
chr8:107861218-107861329
Coord A exon
chr8:107861118-107861217
Coord C2 exon
chr8:107861023-107861117
Length
100 bp
Sequences
Splice sites
5' ss Seq
CCGGTCAGA
5' ss Score
5.27
3' ss Seq
CTCCCCTTTCTGTGCGGCAGGTA
3' ss Score
9.72
Exon sequences
Seq C1 exon
TCCCGCTTGGTGGTAAAGACAGCCCTGAAGCTGCTGCTGGTGTTTGTGGAGTATTCCGAGAACAACGCGCCGCTGTTCATCCAGGCAGTCAACGCAGTAGCCAGTGCCACCG
Seq A exon
GTCAGAGCCTCTCTTTCCCTTTCTCCATCTCTCAGCCCTCTCTCCTACTGCTCCGCCCCCCCCCCCAACCGTGGTTACTCCTCCCCTTTCTGTGCGGCAG
Seq C2 exon
GTACTCTTCCCTGGGCCAACTTGGTGTCCATCCTGGAGGAGAAGAATGGAGCTGATGCAGAGTTGTTGGTGTACACTGTCACTCTCATTAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000014778-Fhod1:NM_177699:7
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:
PF0636711=Drf_FH3=PU(7.5=21.1)
A:
NA
C2:
PF0636711=Drf_FH3=FE(29.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCGCTTGGTGGTAAAGACAG
R:
GTTAATGAGAGTGACAGTGTACACCA
Band lengths:
203-303
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: