MmuINT0010292 @ mm9
Intron Retention
Gene
ENSMUSG00000030972 | Acsm5
Description
acyl-CoA synthetase medium-chain family member 5 [Source:MGI Symbol;Acc:MGI:2444086]
Coordinates
chr7:126678276-126679332:+
Coord C1 exon
chr7:126678276-126678429
Coord A exon
chr7:126678430-126679252
Coord C2 exon
chr7:126679253-126679332
Length
823 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGA
5' ss Score
5.55
3' ss Seq
CCTCCTCTTGTTTTGCTTAGACT
3' ss Score
8.09
Exon sequences
Seq C1 exon
GAGGTGGATGGCCTTGACTGAGTCTGACATATTCTGGAACACAACTGACACTGGATGGGTGAAAGCAGCCTGGACCCTCTTCTCTGCCTGGTCCAATGGAGCTTGCATTTTTGTGCATGAGCTGCCCCGAGTTGATGCCAAAACTATTCTAAAT
Seq A exon
GTAAGAAGAAAAATCTAGTGCTGGGTTTCTGAGCTTTGCACACGTTGGGTAAATGTCCTATCATTAAACGCAACTTCTCCAGGCCTTGTTTTGAAACAGAGTCATACTATGTAACCCAGGGTAACCTTGAACCATTGGTCTTCTGCATTTGAGTCCCAAGAATGGAAGTTACAAGCGTATGCCATGCTCTGAATCATCTCTTGTGTCCTGGGTGTGAATGAGATGAATGGGGTGCATGTTTTAAGTGACATGAGAAATGTAGGAATCTAATGACAAATTCACTCAGAGCCTTTGTAATCTGGTTCCCCTGCCCCAACCTCCAATCATTACCTGTGATCAAAATAGATCCGTAGGCACGAAAGCATTTCATCTCTCTGCACTTTATCAAAGCCTCTTACTGCACGCTGCACCTCTCTTTCCATCACCCTCTTCCCTATGCTCTTGTCAAAAACACAAGCTATTTGTCAAAACTTTAGGTAAAATCCAAAGTCTAGTCCCCAGAGAGTGTGCCACTCAAGAGAGGGAGAGAGGTAAGAACATTTAAGACAGAAGCTGTCCTCTTTCTAATCATTGAATGACTCAAGTGACTCCCATCATGTCAACAGGATGCTATTGGTCCCAAGGACCAATCTTGGAGCAGTCTAAGAGGAGACCCCCATAAAGGAATGAATGCTAGGAGGTGGCTCGTGGAGGTTATTTGGCATACAGATGTCATGCATGGTTTTCTACTCTGCTTTGTCAATGAGACTGTGAAGACCCATCCCACCCATTCCATTTCACCTGAGTGTCTCTGGAAAAACTTTCCTCCTCTTGTTTTGCTTAG
Seq C2 exon
ACTCTCTGCAGGTTCCCAATAACCACCCTGTGCTGTGTCCCAACCCTCTTCCGGCTGCTTGTACAAGAGGATCTGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030972-Acsm5:NM_178758:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(12.3=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(6.3=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:
GAGGTGGATGGCCTTGACTGA
R:
TCAGATCCTCTTGTACAAGCAGC
Band lengths:
230-1053
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: