MmuINT0010271 @ mm10
Intron Retention
Gene
ENSMUSG00000047026 | Acsm4
Description
acyl-CoA synthetase medium-chain family member 4 [Source:MGI Symbol;Acc:MGI:2681844]
Coordinates
chr7:119710587-119711229:+
Coord C1 exon
chr7:119710587-119710688
Coord A exon
chr7:119710689-119711101
Coord C2 exon
chr7:119711102-119711229
Length
413 bp
Sequences
Splice sites
5' ss Seq
GTGGTATGA
5' ss Score
5.27
3' ss Seq
ATGTCATCTTTGATTGGTAGGAC
3' ss Score
5.65
Exon sequences
Seq C1 exon
ATTATAGATGAAAATGGAAATATCCTACCATCCGGCAAGGAAGGGGAAATTGCCCTTAGGCTGAAGTCCGATCGGCCCTTCTGTTTCTTCTCTGAATATGTG
Seq A exon
GTATGAACAGGAAGAACATGCTAGCCATGCCCGAGTTCAGAAATGGCCCCAAATTTCATATCTACCATGTTGTGCTGACTCTTGGGCAAGTGTCCAATACAGATCTATTTCATCCGCTGTAAAGTGGGGATAATAACATCCATTCAGTGAGAGTACTCCCAAGATAAATTCTACAAGGAAGAAACCATTTGCAGTGACTATCCACAGAGAGGAAAAGTGGATCAGCTGAGGCAGAAGAGGTTCCTAGGAGAGGGTTAGCTCTTAGAGCTTAGAGCTTGTATGTTCTATTCTAGGAACTACCCTATCAAACCCCTGACTTCTTTTTAGGAATATGGTGTGTAAGTCACTCATTGGGTGTCACACCCCTGTCTGTTCTAGCAGACAAATCTCCAAATGTCATCTTTGATTGGTAG
Seq C2 exon
GACAATCCAGAAAAGACAGATGCCACAATAAGAAGAAATTTTTATGTCACTGGAGACAGAGGAGTGATGGATGATGACGGATACTTTTGGTTTGTCGGCAGAGCTGATGATGTCATTATATCTTCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047026:ENSMUST00000047045:10
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=0.023
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(8.0=100)
A:
NA
C2:
PF0050123=AMP-binding=PD(9.9=95.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAAATGGAAATATCCTACCATCCG
R:
CCAGAAGATATAATGACATCATCAGC
Band lengths:
222-635
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