MmuINT0094300 @ mm10
Intron Retention
Gene
ENSMUSG00000028649 | Macf1
Description
microtubule-actin crosslinking factor 1 [Source:MGI Symbol;Acc:MGI:108559]
Coordinates
chr4:123385455-123387431:-
Coord C1 exon
chr4:123387228-123387431
Coord A exon
chr4:123385687-123387227
Coord C2 exon
chr4:123385455-123385686
Length
1541 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
AACGAGTCAACCTTGTTTAGTTT
3' ss Score
0.95
Exon sequences
Seq C1 exon
CAACTAAGGGAATCCATTGCTGAACACAAACCTCATATTGATAAGATACTAAAAATAGGTCCACAACTAAAGGAGCTAAACCCTGAGGAAGGGAAAATGGTTGAAGAAAAATACCAGAAAGCAGAAAACATGTATGCCCAAATAAAAGATGAGGTGCGCCAGCGTGCCCTGGCTCTGGATGAGGCTGTGTCCCAGTCTGCTCAG
Seq A exon
GTAAGTGTGACTGTGTCGGGACACTCAACTGTGCACTAGCCTAAGCAGAGGTTCTCTGTTGATGATCCATCATCTGTAGAGCAGAAAACTGTCTGCTTGCATTATTCCCAGTATCGGTGCACTGACGCTGGGTGAGAGGTGAAGTACAGCCTGCCTGGGATGTGTAGTTGTTTATTGATGGTTTCTCTGAGAAATTCATGCTACGATGACTCTTTAGCATCTTAATTAATTTGAGGATAAATTAATTTTGTAGATCCCAAACCAGTAATTACCTTAACAAAAGACAGGTTCCAACTGGGCCTGTTAATGGTAAGATTTAGAATGGTAGCACATTAACGTGAGTAGCCAACTTCAAGTTTAGAAAAAAATATGCATCCAAAGGGAGAAGTACACCAAAGAGAAGGGAATCCCCCAGTGGCAGACCTTACAGCACGGAACTGCACCCTTCTCAACTAATACATTGCTGTTGGTGGCACGTGTGTCGTGTCTGGGTGTTTTACTCCTGTGTTGAGTCAGTATTCTTGGTCAATACTTGTACTTACTCGAGTTTCCCACTCCCGTCCCATCTCACCCCATTGTGGAATGTGTTCCTTTGTGTTGTTGCCGCCTGCTCCTGTCTTCCTCACACCGCCTCATCCCATTGTTGTGTTGACTGCGCCCACCATTGCAGATCACAGAGGTAAGGTGCCCACTCACTCCTATGGGAGCCCATTTCTCAGAGAGCTGAGAGCTGAGGGCATTGCTAGAAGAATGCTTCCCTTACCTTTTGTGGAAGTTCATTGTGTCCATCTTGTTTGGGGTGGAATATAGACGTTAAAGAGAGATGGAAATGGTTTTGTTAAAGAAATTTGTTTTTCTTGTAGGGCACTTAACATTATTGAGACTTGCTCAATATTAAATCCAGAATTGGTTTAGATGTTTTTCTTTTTCTTTTTTTTTTTTTCAAAAACTCCTCTGTGCTGTTCTCACTTTCCAATTCTATATCAAATTATAAATTAAAATTTTATAGGTTTATTCATTTTAGTACCAGGAAGGTGTGAAGGTTTGATTGGCCTTCCTTCTTACCTTTCAGCATGGCCCTTTTCTTTGTCTCACACTGTGGGTTGTTAGACAGCACACCACAAAGTTCCCATTCATGTACACAGAAGCCAAGGGCATCTAACTTTGTCAAGTCTGTCGCATGCAACTGTCATCTCAGCTGCTGAGTGCTGACTCCTACCAGTTTCATAGTCCTGTCACTTTCTTGTCAGATTAGTTGGAGTTGGAGAAGTATTGTGACAATACTAACCATTTTTGTTTGATTTTTGGTATATTACTTAGTATTTTTTGACTTACAAAATAAATACTGCCCTTTCCCCCTTCTGATGGGCTAGCTCTATTATCTAAATCTAAAACAGTTTTTTTTAGAGAAAACTAATACTGAACAGCCATTGTGCTAGGCTGAACACAGGCTATCCTAAACAGTAGGTCACCTTATGCCCTCACATGCCCTTCAATATGATGAAGTATTCTATGATGACTAACGAGTCAACCTTGTTTAG
Seq C2 exon
TTTCATGATAAAATTGAACCCATGTTGGAGACCCTGGAGAACCTGTCCTCTCGCCTGCGAATGCCTCCCCTGATTCCTGCTGAAGTCGACAAGATCAGAGAGTGCATCAGTGACAATAAAAGTGCCACCGTGGAGCTGGAGAAACTGCAGCCGTCCTTTGAAGCCCTGAAGCGGCGGGGAGAGGAACTCATTGGAAGATCGCAGGGAGCAGACAAGGATCTGGCTGCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028649:ENSMUST00000082108:63
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.279 A=NA C2=0.077
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(56.6=88.2),PF060097=Laminin_II=PU(52.4=80.9),PF0043516=Spectrin=PU(0.9=1.5)
A:
NA
C2:
PF060097=Laminin_II=PD(42.9=57.7),PF0043516=Spectrin=FE(69.4=100)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAGCTAAACCCTGAGGAAGG
R:
CCAGATCCTTGTCTGCTCCCT
Band lengths:
357-1898
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