MmuINT0064468 @ mm10
Intron Retention
Gene
ENSMUSG00000014778 | Fhod1
Description
formin homology 2 domain containing 1 [Source:MGI Symbol;Acc:MGI:2679008]
Coordinates
chr8:105331642-105332192:-
Coord C1 exon
chr8:105332037-105332192
Coord A exon
chr8:105331825-105332036
Coord C2 exon
chr8:105331642-105331824
Length
212 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGG
5' ss Score
4.41
3' ss Seq
GGCGGTGGCTGCACCTTCAGAAA
3' ss Score
3.31
Exon sequences
Seq C1 exon
AAAGCTGGTGAGGGCCGCCGGACAATGACCGTAGTGCTGGACCCCAAGCGCAGCAATGCCATCAACATTGGCCTAACCACTCTGCCACCCGTGCACGTCATCAAGGCTGCCCTGCTCAACTTCGATGAGTTTGCTGTCAGCAAAGATGGCATTGAG
Seq A exon
GTGGGGCTACCCTAAGGATAAGGAGGGAAATGCTGGCTCTTCCCTTTGGTCAGTAGAGCTTCCAGTCCTTCCAGCGGTGGGCACAGGCCTGCCATTTCTGTAAAGCATTCTCCCAAACTCAGGGCTCCCCTGGAAGGCCTAGGGCGGGGTAAGAAGACGAGGTCAGGCCTCAGGTCAGTCCTGAGCCTCTGGGGCGGTGGCTGCACCTTCAG
Seq C2 exon
AAACTGCTGACAATGATGCCCACGGAGGAAGAGCGGCAGAAGATTGAGGAAGCCCAGCTGGCTAACCCCGATGTACCCCTCGGCCCCGCTGAGAATTTCCTGATGACGCTTGCTTCCATTGGAGGCCTGGCTGCGCGCCTACAGCTCTGGGCTTTCAAGCTGGACTATGAAAGCATGGAGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000014778:ENSMUST00000014922:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.212 A=NA C2=0.230
Domain overlap (PFAM):
C1:
PF0218118=FH2=FE(13.7=100)
A:
NA
C2:
PF0218118=FH2=FE(16.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTAGTGCTGGACCCCAAGC
R:
CGCTCCATGCTTTCATAGTCCA
Band lengths:
308-520
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types