MmuINT0094244 @ mm10
Intron Retention
Gene
ENSMUSG00000028649 | Macf1
Description
microtubule-actin crosslinking factor 1 [Source:MGI Symbol;Acc:MGI:108559]
Coordinates
chr4:123509772-123510799:-
Coord C1 exon
chr4:123510645-123510799
Coord A exon
chr4:123510049-123510644
Coord C2 exon
chr4:123509772-123510048
Length
596 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
AGTCTCTTCTTGTACTTCAGGGT
3' ss Score
7.5
Exon sequences
Seq C1 exon
GATGCTGCACACCTGGAATCAGGACAGCCAGTGCAGTGTGAGTCAGATGTCATTATGTACATTCAAGAGTGTGAGGGTCTCATCAGGCAGCTGCAGGTGGATCTCCAGATCCTACGGGATGAAAAGTACTACCAGTTAGAAGAGCTTGCCTTTAG
Seq A exon
GTGAGTCCTGGGGTCCCTAGGGAGGGCTGGCTTGCTGTGAGGTAAAGCATTGAGACTGAGATAAGAACTGACACTGAATCTTCACCTTGATTCTCACACTTCTGTGGCTCTGGTATGCATGCACATAGTATATGCAGGAAACGTCCTGTGGTGAGCTCCACTTTTAAACACCTCTCCCTCCCACTAAGTGCCTGGAGTATATTTCCTGTTCACTGGGCCATCTTAATGTATTCCTTTCTATTTCAAAATGACTTGCAAAGGTATGCTAGCACATGTGACTTTGAAACACTGGTAATCTACTGAACTCATTTAGGATGCAGAGTGTCTAAAGTCACATGGCAATTCAGTATTTATTCTGTTATGACCTTCAGGAGTCACAAACACTATGCTACTTCCTTCCAATTAACACTTTAATTTGACATTTGCCTTGAAAAATACCAAACTAGATGATGTTAAAATACCACTTCGCATTCCTGTAATAGGTTTTCAAAACACTTTCTCTAATATAGTCTAATTTTTATTTTTACCATGTGCTTGTTAAATAAATAACGAACAATTTATTTTAAGCATGTGTTAAGTCTCTTCTTGTACTTCAG
Seq C2 exon
GGTCATGCGCCTGCAGGATGAGCTGGTCACCCTGCGCTTAGAGTGTACAAATCTATACCGGAAAGGCCATTTCTCGTCACTTGAATTGGTTCCGCCCTCTACTTTAACCACTACTCACCTGAAAGCAGAACCCCTGAACAAGACGACTCATTCTTCTTCTACCTCCTGGTTTCGAAAACCGATGACCCGGACTGAACTTGTATCTATCTCATCCTCTGAAGACGAAGGCAATCTTCGATTTGTATATGAACTACTCTCTTGGGTAGAAGAGATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028649:ENSMUST00000082108:13
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=0.151
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043516=Spectrin=PU(13.7=14.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCTGCACACCTGGAATCAG
R:
CAAGTTCAGTCCGGGTCATCG
Band lengths:
354-950
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