MmuINT0010291 @ mm10
Intron Retention
Gene
ENSMUSG00000030972 | Acsm5
Description
acyl-CoA synthetase medium-chain family member 5 [Source:MGI Symbol;Acc:MGI:2444086]
Coordinates
chr7:119534234-119534915:+
Coord C1 exon
chr7:119534234-119534377
Coord A exon
chr7:119534378-119534761
Coord C2 exon
chr7:119534762-119534915
Length
384 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTG
5' ss Score
7.76
3' ss Seq
CTTCCTCTCATTTTTGGCAGGAG
3' ss Score
8.59
Exon sequences
Seq C1 exon
AGCGGCTTCTCCAGAGCACAACTGTGTGAGAACCAGAAGTGGAGATTCAGTGGCCATCTACTTCACCAGTGGAACCACAGGGGCCCCCAAGATGGTGGAACATTCCCAGTCCAGCTATGGATTGGGTTTTGTGGCCAGTGGAAG
Seq A exon
GTATTGGAAGAGTATGTCTCGGAGGTCTGAAAACAAGGTGGGTGAGTGAAGAGAGAGGAGAGGGTGAAGGAGAAAAATATGGAAATGGAGGTGAGAGAGGAAGCAGAGAGTTAGTCAGGTAGGGCCTTGAAGGCTTTTCGTTGAGAAAGCACAGGACCTGTTCCTTTAACTTGTCTTCCTAGGCTATGACACAAGTACAAAGAAAGTGCTGAGCAAGCATTTGTTGAGCTCACAGTTGAGATGATGGGTCTTGTGTAGATTTGATGAGCTTAAGTGGTACTTTTTTGCAATCTGAGCTCCAAATAATGAGGTGTGAACAGTATTATCCATTCTAAAGGTGGGGGCTTTGATAAGGATGCTCTGACTTCCTCTCATTTTTGGCAG
Seq C2 exon
GAGGTGGATGGCCTTGACTGAGTCTGACATATTCTGGAACACAACTGACACTGGATGGGTGAAAGCAGCCTGGACCCTCTTCTCTGCCTGGTCCAATGGAGCTTGCATTTTTGTGCATGAGCTGCCCCGAGTTGATGCCAAAACTATTCTAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030972:ENSMUST00000066465:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.005 A=NA C2=0.034
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(11.6=100)
A:
NA
C2:
PF0050123=AMP-binding=PD(22.4=94.8)
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:
CGGCTTCTCCAGAGCACAAC
R:
TTAGAATAGTTTTGGCATCAACTCGG
Band lengths:
294-678
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