MmuINT0094263 @ mm10
Intron Retention
Gene
ENSMUSG00000028649 | Macf1
Description
microtubule-actin crosslinking factor 1 [Source:MGI Symbol;Acc:MGI:108559]
Coordinates
chr4:123486667-123488412:-
Coord C1 exon
chr4:123488329-123488412
Coord A exon
chr4:123486775-123488328
Coord C2 exon
chr4:123486667-123486774
Length
1554 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
TCAAATTTCTCTTGTCCTAGGAC
3' ss Score
8.42
Exon sequences
Seq C1 exon
GAACTCTTTGCTGAAATTGAGAGAAATCAGACAAAGTTGGACCAATGTCAAAAATTTTCCCAGCAGTACTCCACTATTGTGAAG
Seq A exon
GTAATTGTACCATATCCCAGAAAGAATAAATGATCTCCAGCTTAGGAAGGCTACATTATCACTGTAAGTCCTTCTCTGCACAGATTATGAGAGCTCTGCCAGAGCCCCCACCCCTTAGAGGCTGTCTCTGAGCCAGGAATGACATCATTACCTGAGATGTTACTTGAAATGCCCTCAACCTATTAAATCTGGTTCCACATTTTCCTAAGGTCCCCCTAGATGAATTCTACACGTATTGATGTTTGAGAAACTGGGCCTATATCCTTGAAAGATTTTGATCATATAGGAACAAGGTGATCATATTTGTTTCTTAGAAACGGTATCAGGAGCCAGGCAGTGGTAATGCAGGTCTTTAATCCCAGCACTCAGGAGGCAGAGGCAGGCAGATCTCTGAATTTGAGGCCAGACTGGTTTATAAAGAGAGTCCCAGGATGACCAAGGGTACACAGAGAAACCTTGTCTTTAGGGGGAAAGATATAAGGAGCATGAGAGTAGAAGTAGTAAGATAAATAAGTGAATAAGGGACTGTTTAAATGAAGAGAGTTTGGAAGGTGGGGAGCAAAGCACTCTGCAGGTTACAGGAGAAGCACAGGATATGAAGTAAAATGAGGAAAGGATTTGAAAACAGTTTCTAATCTGTACTGATTTAGGAAAATCCACTTTCCCTATTTGAACTTCAGTTTCTCCAAGAGTGAGATCAAAGAATTAGACATCAAATCACAGATTAAAAACTCAGAATTCAGCAAGGTATGATGCACAGGCTGAGTCTAGGCCACACATTCTCTTTTGTATGGCCATTGAAAAAATTTAAAAGAATCACATTAGCCAGGCGTGGTAGCCCACGCCTTTAATCCCAGCACTCGGGAGGCAGAGGCAGGCGGATTTCTGAGTTCGAGGCCAGCCTGGGCTACAGAGTGAGTTCCAGGACAGCCATGGCTACACAGAGAACCCCTGTCTCAAAAGAAAAAACAAGTTCTTATAATTAAAAAAGCACACTGGTGATGCAGAGACTGCACCAAGCCTAATGACCTATAGCCAGGGCTATTCAGAGAAACCCTGTCTCGAGAAACAAAACAAAACAAAACAAAAGAATCATATTTTATGATACTTTTTTTTAATAAAAGAATAAGAACTGGGCAGTGGGCAGTGTTCATTTGACCAAAACCTTGCCTAGTATCATATAAGACTGAACTTAGCAATGCACAACTCTGATGCTAGCATTTGGAAGGGTTAGACAGGAGGTTAGACAGGAGGATCAAGGTCTGGTTTTTTTTGTTTTTTTTTTTTCTACACTGGAAGTTTGAGACCACCCTAGGCTACATAAGGCCCTGGCCAATAAATACATAGATAAGTGTAAGTAAAGTTATTTTATAAATAGTCACACTCATTTATGAGACAGAATCAATATTTCTGACAGGTAGGATGGCCCAATATTTGCCAACCTGTAGTCTAAACAAACACTAAATGAAGTCCAGCAAGAAAATACTAAGTTTTTGTTGTGTGATATGTTAGCTATGATCTTAAGTAAAGGAAGTCAAATTTCTCTTGTCCTAG
Seq C2 exon
GACTATGAGTTGCAGCTTATGACATATAAAGCCTTCGTGGAGTCACAGCAGAAATCTCCAGGCAAGCGCCGCCGCATGATTTCCTCTTCAGATGCCATCACACAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028649:ENSMUST00000082108:30
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=0.278
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GAACTCTTTGCTGAAATTGAGAGA
R:
CTCCTGTGTGATGGCATCTGA
Band lengths:
192-1746
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