MmuINT0065082 @ mm9
Intron Retention
Gene
ENSMUSG00000055805 | Fmnl1
Description
formin-like 1 [Source:MGI Symbol;Acc:MGI:1888994]
Coordinates
chr11:103054264-103055049:+
Coord C1 exon
chr11:103054264-103054516
Coord A exon
chr11:103054517-103054761
Coord C2 exon
chr11:103054762-103055049
Length
245 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGC
5' ss Score
6.46
3' ss Seq
CGGGCACCTCCCACCTTCAGCAG
3' ss Score
5.62
Exon sequences
Seq C1 exon
GAGCGCTTCAGCGAGTCGACCCCCATGGGCACTTCCAGACGAATCCCTGAACCTGAGAAAGTGCCTGTCCCTACCGTGGTGCGACCCTCGGCTCTAGAACTGAAGGTGGAGGAGCTTGAGGAAAAGGGGTTAATCCGCATCCTGCGGGGGCCGGGGGACGTCGTTTCCATCGAGATCCTTCCAGGCGCTGCGGCGACACCAAGCGGTGACGACGCACAAGCTCCGAGGGTGTCCACTGATTCCCCTAGCACAG
Seq A exon
GTGTGCAGGAGCTTCATGCCGGGAAGCGGGATTGGTGGGGGTGGGGGTGGGGAGGGAAGAGAGACCCGGGCAGGGAAGGGTATCCTGGGGATAGACCTAGCTGTGAAAGATAAGGAGGTTAGATTGTAGGCGTGGCACAGGTACACGCAGGTGGGTCAGTAAAATGGGTTCTGGACGCATAGAAGAGGGAGGTGGCAAGGACCCACCCACCCAGGCAAGAAGTAACGGGCACCTCCCACCTTCAG
Seq C2 exon
CAGAGTCAATTCCCGAAGCAGCATCACCACCGCCTCCGCCACCTCCACCACCACCTCCACTACCTAACCTCCAGTCCCAGCAGGAAGCCCCTCCCTCCGCACCCCCGCTGGCCCCGCCCCTCCCAGGCTGCGCAGAGCCGCCACCTGCACCACCGTTGCCTGGAGACCTGCCTCCCCCACCTCCGCCACCCCCACTTGGTACTGATGGACCAGTGCCACCGCCACCGCCACCGCCTCCGGGAGGGCCCCCTGATATCCTTGGAGGACAAGGCCCAGATATCGGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000055805-Fmnl1:NM_001077698:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.918 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0636711=Drf_FH3=PD(3.0=5.9),PF051307=FlgN=PD(7.1=7.1)
A:
NA
C2:
NO
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:
GCACTTCCAGACGAATCCCTG
R:
GCTGGGACTGGAGGTTAGGTA
Band lengths:
306-551
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: