MmuINT0065107 @ mm10
Intron Retention
Gene
ENSMUSG00000036053 | Fmnl2
Description
formin-like 2 [Source:MGI Symbol;Acc:MGI:1918659]
Coordinates
chr2:53103657-53105580:+
Coord C1 exon
chr2:53103657-53103806
Coord A exon
chr2:53103807-53105478
Coord C2 exon
chr2:53105479-53105580
Length
1672 bp
Sequences
Splice sites
5' ss Seq
CATGTAATT
5' ss Score
1.05
3' ss Seq
TTCTCCTCCCAATTCCACAGTTG
3' ss Score
8.77
Exon sequences
Seq C1 exon
AAGCTGAAACACACAGAGAGCGACAAGCTGCAAGTACAGATTCAGGCTTACCTGGACAATGTGTTTGATGTGGGAGCTCTGTTGGAAGACGCAGAAACCAAGAATGCTGCCTTGGAGCGGGTGGAGGAGCTGGAAGAAAACATCTCTCAT
Seq A exon
GTAATTGCATTTCAGAGAGGGAAATGCACTGGGGGTGGGAATGGGATAACGCTAGCTTCTGAGGGAGGAGGTGGAAGGGTCTGACATAGAAATGAGCAGAGTTCATAGAAGCCATCTAGGTTCTTAAAGAAGGAACCAAGCCCTTGCTTCGTTTCCTACCTTCCTGTTCCATTTCTCCAAAGTCACACACTGGCAATCCTAGTTGCCAACACAGAATAGGAGGGTTGACAGTCTAAGGGTTAGAGGGAAATGAAGAGAGGGACTCTGGCCTCGTGATGGAGTCTCTGAAGATGACCCACTTTCTCATAGTGCCCTCAGAGCCTGAGGGATAGGGCTGTCTCCAGTTGATACAAGTCTCCGTGCTCCTGCCTACGTTGTACCTCAGGTTCTGCTCAGGGTCATTCCAGCTGTAGGAGTTCTGCAGGAAACCCCTGAGCCTTGTCAACTCTGGTCGTCTTTGAAGAATCAAGTCCTCTCGGTGTCTTGATCTGCTTTAAGGGAATTTTGTTAACCACAAAGAGGTTAATAGTAACCTAGAGGCTGTGAGATGTTAACATATGTCATATTGAAGAGTAAACGGAGAGCTGTAGTTTTCAAAACCTCATGCATCGTGAGGGCTGTTCCTTTTTAACCATTGCTCAATGGTGAACCTGGGGCCTCGTACATGAGAGGAAGACACCGTCCGGCTGAGCTCTGGAGAACAAAGTTCTTACCATGACTTGACGGGAACTTTATTGTCTCTATTTGTGGGAATATTTTTTCTCTCTCTGCAGCGTGCTTTTGTTTCCTGCCATACTTTGTTTTAGAGTATGGCATATGTTTACTTTATCCCTTACCACCACTGTGAAAACGGGGCTCCCATGGCTCATAGTTAAAACAAGTGTGTAAACCCCAAGTCCCCGCTTTGGGAAGCTCTGCACTGACTTGGTTGACATCTGCTCAGTGAGAGTGTTTACAGGTTCAGTTGTTTTCTTTCTTTTTCTTTTTCCTTTTCTCTCTCTTTGAAATTACACTTTTACCCAGTAAATCTCTATCTAATCTTCTGCCTTGCTTCAGTGGATGGCTTTGCCTCTTATTATGTCCAATGGGGGGCTGTGTCAGATGTTTCTTGATTGTAGAACTTTATATGAAAACTAGCTAGTCAGCACATGGCTCCCTTCCTCCCCTCATTCCTCCCAACCAGCACTATGTAGTCTTTCTCTATTGATGTTTATAAAAATAACTGCCATTATTGGGTAGTTTGGGCTGAAGAAAGCCAAAGTACTTAGTTTAGCTGACTAAAATGTTACAGCCATGTTTTTCCAGATCAAAACTTTCCAGACGCGTCTACCTGATCCCTTGTTAGGCGTAGAAGGTGGCCTTCCACTCTCCTTCACCTTAATTTGTCCTACTCTTAGTTCAGGACATGCAAAAAGAGAGATGGCTATGTATGTTCACCGAATGGCTGCTGTATGGGTTTTATAGAAGCCACCTATACATTATTGATTCCTGATAGAAACAGATATGTCTTCAGAACCGTAGTATAAAAATTAATGTTTCCAGTAAATAACTTCTGGACTATATGCAAGACTCTGGTGGGTCCTTGGTTGACTGAGATATATGATTTTGAGGACCAAGGACCTGGTCAGAATGATCTGTGTTGTAACTCTGTTTTCTCCTCCCAATTCCACAG
Seq C2 exon
TTGTCTGAAAAGCTGCAGGACACGGAGAACGAAGCCATGTCCAAGATCGTGGAACTGGAAAAGCAACTTATGCAGAGGAATAAGGAACTGGATGTTGTCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036053:ENSMUST00000090952:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.080 A=NA C2=0.206
Domain overlap (PFAM):
C1:
PF0636711=Drf_FH3=FE(23.9=100)
A:
NA
C2:
PF0636711=Drf_FH3=FE(16.1=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:
AGCTGAAACACACAGAGAGCG
R:
ACAACATCCAGTTCCTTATTCCTCTG
Band lengths:
247-1919
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