MmuINT0094317 @ mm10
Intron Retention
Gene
ENSMUSG00000028649 | Macf1
Description
microtubule-actin crosslinking factor 1 [Source:MGI Symbol;Acc:MGI:108559]
Coordinates
chr4:123512047-123512868:-
Coord C1 exon
chr4:123512762-123512868
Coord A exon
chr4:123512167-123512761
Coord C2 exon
chr4:123512047-123512166
Length
595 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAAA
5' ss Score
6.53
3' ss Seq
TGTTTGCCTTCTGACTGTAGGAA
3' ss Score
8.81
Exon sequences
Seq C1 exon
ATGTGGATGTGCCATCTCCAGATGAGAAGTCTGTAATCACTTACGTGTCTTCAATTTATGATGCCTTCCCCAAAGTCCCCGAGGGAGGAGAAGGGATCAGTGCTACG
Seq A exon
GTAAAAGGACATTTTCCTAAAATACCAAGTCACAGAGGTAGAAAGCCTCCATTAGATAGTGCTTTTTAGTTTCTTATGCATAGAGCACTTTCACAAAGACCACCTGACTCTACATTATCTCTGTCATAATGGACACTGTCCCTGAGAATGAGTCTGGGTATTGCTAATTTTGTGCCATCTAACATAGACCATTTGATGTTAAATGCCAGCCCCCCTCCCCAATGTTCTTTTTATTCCCAGCTGTAATTCAAGATGAAGCATTTTCATCTCAGCTACTGATAGAAGTTTGATTAGAGCCCCATTGTGCTCTAGGATAGCCTGCTGCCTCAGCCTCGCTGTGTTGTAATTACAGTGTGAAGAATCACCATGCTTGGAAAATACCCTACTTCATAATCAGAGTAGCTTGGTTTATAGTCTGTCTACCTGTCAGGATATTGAATGCCAGCTGGAGATTCCTTGGGGAGCTTTGAGATTGAGTCTCTGAGCACTCAAGAGAGAGTTTTATATGGTATGGGGTGACCTTGACTACTTTATCCTGTGCTGCTGCTGCTGCACAGTACAAATCGGATCTGTGATGTTTGCCTTCTGACTGTAG
Seq C2 exon
GAAGTGGACTCCAGATGGCAAGAATACCAAAGCCGAGTGGACTCACTCATTCCCTGGATCAGGCAGCATACGATCTTGATGTCAGATAAATCTTTTCCCCAGAACCCTGTTGAACTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028649:ENSMUST00000082108:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.025
Domain overlap (PFAM):
C1:
PF0030726=CH=PD(22.5=63.9)
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:
TGGATGTGCCATCTCCAGAT
R:
TTAGTTCAACAGGGTTCTGGGG
Band lengths:
222-817
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