MmuINT0094294 @ mm10
Intron Retention
Gene
ENSMUSG00000028649 | Macf1
Description
microtubule-actin crosslinking factor 1 [Source:MGI Symbol;Acc:MGI:108559]
Coordinates
chr4:123394070-123395247:-
Coord C1 exon
chr4:123395006-123395247
Coord A exon
chr4:123394277-123395005
Coord C2 exon
chr4:123394070-123394276
Length
729 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
GAAAACCTTTCCCTCCTTAGGAA
3' ss Score
9.53
Exon sequences
Seq C1 exon
GCGAGGAGGTACTGCTTATCCAGGAGAAGCTGGATGGGATAAAGACCCGCTATGCGGACATCACTCTCACTAGCTCCAAGGCCCTCAGAACTTTAGAACAAGCCCGGCAGCTGGCCACCAAGTTCCACTCTACATATGAGGAACTAACTGGGTGGCTGAGGGAGGCGGAGGAGGAGCTGGCAGCCAGTGGAGGACAGTCTCCCACAGGGGAGCAAATACCCCAGTTTCAGCAAAGACAGAAG
Seq A exon
GTAAGCCATCATTTTATACTGCAGCAGGCAAAGAAGTTTCATCTTTGTCTGTATCATATTTCCTTACCTTTACCTTAGAACTAAACCAAATGAACTCCTGCTTTCTCTCTTGTGTACTCATGACAACAAGATTTTACATAAAGATAAGGCTGTTGTCTGAAGAAGAAAGAAGTCAATTTCTAGGTTCTAAGTTTGCTTGCTGTGTCACCTATAATTCACCTCCACCATTCATTCTCTAAAGGGGGCACTGTTTGGAGACCAGAAGACAAGTGAAAAGGAGGCGAGGGAGATGGATGCGGGCACTAGAAGAAAAAGAACAAGAACAAAGCAAGGGAAGGAATTAAATGGGGGAGGTGCTTCGTAGTTAGTTCTAATTCTGCTGCAGTATCAAAAGCAGTTCTTGATGCACAGAAATCTTTGTGGGTATTTGTTATGTTAAATGCCCCTAGTTAGAGCATTAAGGAATAGAAAGAAAGAAACACTGTTTTTACACAGACAGTGTGACTCAAATCTTGCAGACAGTTGTAAATAAGCAGCAGCTAAGCTGAAAGTCAGGCAGGTTTCAAAATGATTGAAAATGTGAGGCAGAGAAAAAAAGAGCTGAAGGAAGGAGGTCAGTGCCCTGCTGGGATGTGTGCTGGAGATAGGCTTCCCCCAACCCCCCAGCACACACTGCTGCTGATGGGCTTAATTTAGCAAGGTGTGGCCTGAAAACCTTTCCCTCCTTAG
Seq C2 exon
GAACTGAAGAAGGAGGTCATGGAACACAGGCTGGTGTTGGACACAGTGAATGAGGTGAGCCATGCTCTCCTAGAGCTGGTGCCTTGGAGAGCCAGAGAAGGACTGGATAAACTTGTGTCTGATGCCAACGAGCAGTACAAACTGATCAGTGACACTGTTGGACAAAGGGTAGATGAAATTGATGCTGCTATTCAGAGATCACAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028649:ENSMUST00000082108:58
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.296 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(30.8=40.7),PF0043516=Spectrin=PU(41.5=54.3)
A:
NA
C2:
PF0043516=Spectrin=PD(56.6=87.0),PF0043516=Spectrin=PU(3.7=5.8)
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:
CCAGGAGAAGCTGGATGGGAT
R:
GCTCGTTGGCATCAGACACAA
Band lengths:
356-1085
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