MmuINT0065095 @ mm9
Intron Retention
Gene
ENSMUSG00000055805 | Fmnl1
Description
formin-like 1 [Source:MGI Symbol;Acc:MGI:1888994]
Coordinates
chr11:103042196-103043096:+
Coord C1 exon
chr11:103042196-103042309
Coord A exon
chr11:103042310-103043022
Coord C2 exon
chr11:103043023-103043096
Length
713 bp
Sequences
Splice sites
5' ss Seq
GGGGTATAT
5' ss Score
2.46
3' ss Seq
TTTTTTTTTTTGGCCCTTAGTTT
3' ss Score
8.77
Exon sequences
Seq C1 exon
GAGCGGTTTCAAGTCAAGAATCCCCCTGCAGCCTACATCCAGAAGCTGAAGAGCTACCTGGATACCGGTGGGGTCAGCCGAAAGGTAGCATCTGATTGGATGTCCAACCTGGGG
Seq A exon
GTATATATCTCCCTTCCTATTCTCCCTCTTTCTGTCCTGCATCCTCCAATGTGTATGTGTGTGTGTGTGTGTATATATATATATATATATATCATACATGTGCTTACATGGGCATTCCTGTATGCATTTGTATTATATGTATACATATGTGCACCCTGTGTATTCATGCATAGACATGTGTGCATGTGTGTAATCTGTGCTTTGGGATTTGTTGGTATATTTGTCCTTGTGTATCCCTGAGTCCATACATAGGAGAAAGAGAGAGGTAGAAAATATGGATGCATATGTATGTATCCCATATATAAACAAATGGGCATGTAGGTAGGCACCCACCCTGGGTATACAGATCTGTGGATCTCCTGTGTGGATGTACATGCTTGTGTTTGATGCATGCATGCCCAGTATGTCTGTGTAGAGATGTGCATGCGTGAGTGTGTATACTGGATCTCTGTATAGAGTTATGTCTGGGCACCCTGTATCTTCAAACATGTGTGGGTATACCGGTAGTCTATGTTGGGGGGAAGGCATGTCGTCTGCCAGCGTTTATTCTGTTGCACAGGTGTGTGGAGGTGGTGGGGGAGGCTAAACGTGAAAGGCCTTGAATGTGTGTTGCGGGTGGATACTTCTGGCCGATGCCTCAGGACTGTGGGAGTCTGGGCTCCACCCACAGACTCCTTGTTTTTTTTTTTTTTTTTTTTTTTTTTGGCCCTTAG
Seq C2 exon
TTTAAGAGGCGAGTTCAGGAGTCTACACAGGTGCTGCGGGAACTGGAGACTTCCCTGAGGACAAACCACATTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000055805-Fmnl1:NM_001077698:3
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=0.080
Domain overlap (PFAM):
C1:
PF063718=Drf_GBD=FE(25.3=100)
A:
NA
C2:
PF063718=Drf_GBD=FE(16.4=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:
GCGGTTTCAAGTCAAGAATCCC
R:
TGTGGTTTGTCCTCAGGGAAG
Band lengths:
182-895
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: