MmuINT0065097 @ mm10
Intron Retention
Gene
ENSMUSG00000055805 | Fmnl1
Description
formin-like 1 [Source:MGI Symbol;Acc:MGI:1888994]
Coordinates
chr11:103182086-103182767:+
Coord C1 exon
chr11:103182086-103182169
Coord A exon
chr11:103182170-103182641
Coord C2 exon
chr11:103182642-103182767
Length
472 bp
Sequences
Splice sites
5' ss Seq
TGCGTAAGC
5' ss Score
5.73
3' ss Seq
TCCTTGCGTTGCATCTCCAGATA
3' ss Score
8.92
Exon sequences
Seq C1 exon
GTGGGTGCAGGAGTTCCTCAATGAAGAGAACCGGGGTCTGGATGTCCTGCTTGAGTACCTGGCCTTTGCCCAGTGCTCTGTTGC
Seq A exon
GTAAGCTCCTTGCCCCAGCCCTCATGCCTCCTCTCAGTGTCCTGGTCACACACTCCTGGGTCTCCGCTAGCTCTCTGAGCAGGCACTGATCTCCCCCCCATCCCAGGAAAGCTGGACTTGGCTCTGGGCCATGGATCTTCCGAAGGCCCACCCGTGCCCAGAAGGGACCTTCCTGCTCCCTCACTGTGCTCACCATAGAGCTATGGGTGAGCTGGGTGTGGTACAGATCTCTAATTTCAGAATTTGGGAGGCAGAGACAGGCAGAGCTCTGTGAGTTCTGGCCAGCCTGATCTACATAATGAGAGCCTGTCTCAAGAAACAAGAAACAAAAACAGGAGCCATGAATGATGACAAACTCCTACAGGGATGGCAAACTCTCCTGCAGATCTGTCTTGCTTTGCACGTCCCTCTGTCTCCTCTTTAAGTGTCCCTTGTGGGAGGAGTCTCCAAACTCCTTGCGTTGCATCTCCAG
Seq C2 exon
ATATGACATGGAAAGCACAGACAGTGTGGCCTCTGGTGCAGAGAAGAGCAAGCCCCTGGACCAGTCTGTGGAAGACCTCAGCAAGGCACCTCCCTCATCTGTGCCCAAAAGTCGCCTGACCATCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000055805:ENSMUST00000042286:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.523
Domain overlap (PFAM):
C1:
PF063718=Drf_GBD=FE(19.2=100)
A:
NA
C2:
PF063718=Drf_GBD=PD(6.8=23.3),PF063718=Drf_GBD=PU(6.1=11.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGTGCAGGAGTTCCTCAATG
R:
TGATGGTCAGGCGACTTTTGG
Band lengths:
207-679
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