MmuINT0010286 @ mm9
Intron Retention
Gene
ENSMUSG00000030972 | Acsm5
Description
acyl-CoA synthetase medium-chain family member 5 [Source:MGI Symbol;Acc:MGI:2444086]
Coordinates
chr7:126684325-126685950:+
Coord C1 exon
chr7:126684325-126684424
Coord A exon
chr7:126684425-126685830
Coord C2 exon
chr7:126685831-126685950
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-Acsm5:NM_178758:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.100
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
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: