MmuINT0094291 @ mm9
Intron Retention
Gene
ENSMUSG00000028649 | Macf1
Description
microtubule-actin crosslinking factor 1 [Source:MGI Symbol;Acc:MGI:108559]
Coordinates
chr4:123074337-123075150:-
Coord C1 exon
chr4:123074991-123075150
Coord A exon
chr4:123074664-123074990
Coord C2 exon
chr4:123074337-123074663
Length
327 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
TTTTCCATCTGGATTTCCAGGCT
3' ss Score
7.09
Exon sequences
Seq C1 exon
GCAAAAACAGCTGGAAGATATCTTGGTTCTGGCTAAACAATTCCATGAGACAGCTGAGCCTATTTCTGACTTCTTATCTGTCACAGAGAAAAAGCTTGCTAACTCGGAACCTGTTGGCACTCAGACTGCCAAAATACACCAGCAGATTATTCGTCACAAG
Seq A exon
GTAGGAAAGTGCTGCCATAGATGAAACAGAGCCAGAGGTAGAGACTGAAAAACTGCAGCATTCTCTAGAAGATGTTTTGTGGAGTTTTTAGTTTAAGATGAGGTCATATTAGTTGGAGAAGTTACACTGGGTTGAAGTAAAGTAGACATTGACTAATAGCTGAACATCAAAGGGGAGAGGAGCAGCTTGTGTGTTACTTCTCATATTGTTTTTGCTGTGCAGCAGGTGAATTTTTATTTTAATTTGTTCTGTTATTTGTTATTCATTGTTTCATGTTTGTTTTTCATTTACTTTTTTGTTACTCATTTTTTCCATCTGGATTTCCAG
Seq C2 exon
GCTCTAGAGGAAGAAATAGAAAACCATGCAACAGATGTGCACCAGGCAGTTAAAATTGGGCAGTCCCTCTCCTCCCTGACATGTCCGGCAGAGCAGGGCATCATGTCAGAAAAGCTAGACTCATTGCAGGCCCGATACAGTGAAATTCAAGACCGGTGCTGTCGGAAAGCATCCCTGCTCGAGCAGGCCCTGTTCAATGCTAGGCTGTTCGGGGAGGATGAGGTGGAGGTGCTCAACTGGCTGGCTGAGGTTGAGGACAAGCTCAGTACAGTGTTCGTAAAGGATTACAGACAGGATGTCCTGCAGAAACAGCATGCCGACCACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028649-Macf1:NM_009600:56
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.102 A=NA C2=0.009
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(5.6=11.1),PF0043516=Spectrin=PU(41.1=81.5)
A:
NA
C2:
PF0043516=Spectrin=PD(57.0=56.0),PF0043516=Spectrin=PU(40.6=39.4)
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:
TTCCATGAGACAGCTGAGCCT
R:
AGTTGAGCACCTCCACCTCAT
Band lengths:
358-685
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: