MmuINT0010242 @ mm10
Intron Retention
Gene
ENSMUSG00000033533 | Acsm1
Description
acyl-CoA synthetase medium-chain family member 1 [Source:MGI Symbol;Acc:MGI:2152200]
Coordinates
chr7:119655416-119656083:+
Coord C1 exon
chr7:119655416-119655496
Coord A exon
chr7:119655497-119655981
Coord C2 exon
chr7:119655982-119656083
Length
485 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGG
5' ss Score
5.06
3' ss Seq
TCACAGGCTTCTTATTCCAGATC
3' ss Score
6.27
Exon sequences
Seq C1 exon
GGGATCAGCAGTGCCACCCTCCGGGAAATGAAGATCAAGCGAGGCTCCATAGGGAAGGCCATCTTACCCTTTGACTTGCAG
Seq A exon
GTCTGGTCTTAGGGTGCTGATGGGGAGCACTTTATAGCCCACTGGGTATTAGGATCATGTGTGATGGCAGATGGTAGAGCCAACTACACCAGCACCCAAGCCACCCTACTCCTTGGTTCCTGTTTTCCCCAACATCTATGGAAGCTTTGGGTGAGAAGTACTTTGGATACTAATGCAGCTCACTTGACGGAGTGATGCATCACACATGGTGTATGAGAAAGGAAACTAAATAATTCCCTCGGATGACACTGTTTTCCAGTTTGTAGACATGGCAGTAACATCTACATTCCCATGAAACAAAGATCCCTTTGTCTTGGGTTCCATATTTACTGATTTCCAAGAAGTTGAGAGTTTTATAATATTTTCTGACGGTTTGTCCATGAGTAGGTCCCATTTGCCTTACTAGTGTCTTATGGTGAGCCAAGCAGTGGCACAGAGGGCTGGACGAGTCTCACAGTGTGGGATTCACAGGCTTCTTATTCCAG
Seq C2 exon
ATCATCGATGAAAAGGGCAACATCCTCCCACCCAACACTGAAGGATACATTGGCATCAGGATCAAGCCCACCAGGCCTCTAGGCCTCTTCATGGAATATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033533:ENSMUST00000047929:9
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=0.108
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(6.3=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(8.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGATCAGCAGTGCCACCCTC
R:
CTCATATTCCATGAAGAGGCCT
Band lengths:
182-667
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