MmuINT0010286 @ mm10
Intron Retention
Gene
ENSMUSG00000030972 | Acsm5
Description
acyl-CoA synthetase medium-chain family member 5 [Source:MGI Symbol;Acc:MGI:2444086]
Coordinates
chr7:119540811-119542436:+
Coord C1 exon
chr7:119540811-119540910
Coord A exon
chr7:119540911-119542316
Coord C2 exon
chr7:119542317-119542436
Length
1406 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
CTGAGGTTCTCTCCCTGCAGGTG
3' ss Score
11.48
Exon sequences
Seq C1 exon
CTACCGGATTGGTCCTGTTGAAGTAGAGAGTGCACTTGCTGAGCATCCAGCTGTCCTGGAGTCTGCTGTGGTCAGCAGCCCAGACCCCATCCGGGGAGAG
Seq A exon
GTAAGCCTCTTCAAGCAAGAACAGAACCTCATTGTTTTCTACTTGTTAGCACCCAAAGGAACAAGGGGAATGCGAAATGGTAGATCCCTCCTTTGGTCTCAGCCTGCCCCCCAAAACCACAAAGCTGAAACTCCACCTGCAGCCACACATTCCTTCTGATTAACCTCCTTTAGAATCGTAAATACACTCTACAAAAACAAGATGGGAAATTAGTTTTACTTGGACAGCAGACAATCCCAGCAATCCAAACACAGTCTGAACATAGACTGGTACATAATAGGTGCTCAATAAATGTTTAATAGTAATCATAGTATGAGATAGCTCTTCTTAAAAGCCAGATTTGTCTGAACACAAAATGAGAGTGAGCTCACACCTTTGGGAAGTGTGCAAAGAAAACCACCCCTTAGCAAAAGCTTGAGAAGTATGCAGAGTTTGATGTTGCTGTAGACCTGCAACCAAGTGGCCTTTTAAGCTCTTCCATTGCTATCAGAAAGTGGTTTTTTTACTCTATTTTGAGGTTATAATATAATGACAACATTTCTCCCTTCTTTTCCCTTCCTCTAACTCTCCCATATACCCCTTCTTGCCCCCTTTCAAATTCATGACTTTTTCTATTGTTAATTGTTATTACATGTATATATGTATATGTTATATATATATATGTTCTGTGTGTGTGTGTGTGTGAATAAATGTGCAATGTATCACAGCACATGTGTGGAGGTCAGAGGACAACTTGCAAGAGTAAAACCATGTAGGTTCCGTATAATGAACTCAGGTCGTCAGGCTCAGCCTCAAACACATTTACCCTCTGATCCATCTCAACAGCCTAGAAATTGTGTTCTGAACAGTTGCTCCCTCTTTATCAGGAGGCAAAATCCAGGAGAAACCTGGGCAGACAAAGCCAAGGCACAGAATGCCCCTTGGCATGACTGAAACAGAAATGATATAGTTCCATGTTTGCTGATGGGAAACTTACATGCAGCACTCTCCAGAGACCAGAGGCCCTTGAATGGGGCTGTGTTTTTCTCAGTTCCACCTGAACAGCCCTTCCTCCTCTATCCTCCTGCAGAAAAACCAGGAAGTAAATGGCTATTGTCATTGGGAAGGTACTTCCTCCAGTGTCTTTGCATCTTATGGGAATCAGTGTGGGCTTCTAATGAAGCCATTGTAAGTATGGCACGGAAGATGAGGCTCCAGAATGATTCCATAAAAGCCAATGATCCAGCATTTCAGTATGAACAGACAGGAAACAGGGAAAACAGCGTTGTTTATGCCACTGTCTGTGCTTGAAGACCTAGTAGCACCCTCATGTTTAAGTTTAAGTAGGCATAAAGGCACACGGCTAGCTTGAAGAGAAAAACATCATAACCAAAGGCTTGATCACTTCTGAGGTTCTCTCCCTGCAG
Seq C2 exon
GTGGTAAAGGCATTTATAGTCCTTTCTCCAGCCTATGCATCTCATGACCCAGAAGCCCTGACCAGGGAACTCCAGGAGCATGTGAAGACAGTGACTGCTCCATACAAGTACCCCAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030972:ENSMUST00000066465:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.044 A=NA C2=0.098
Domain overlap (PFAM):
C1:
PF131931=AMP-binding_C=PU(32.1=76.5)
A:
NA
C2:
PF131931=AMP-binding_C=FE(48.1=100)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGGATTGGTCCTGTTGAAGT
R:
CCTGGGGTACTTGTATGGAGC
Band lengths:
214-1620
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