MmuINT0010288 @ mm9
Intron Retention
Gene
ENSMUSG00000030972 | Acsm5
Description
acyl-CoA synthetase medium-chain family member 5 [Source:MGI Symbol;Acc:MGI:2444086]
Coordinates
chr7:126671933-126673992:+
Coord C1 exon
chr7:126671933-126672152
Coord A exon
chr7:126672153-126673781
Coord C2 exon
chr7:126673782-126673992
Length
1629 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TGGCTGCACTCACTGTCCAGACA
3' ss Score
5.5
Exon sequences
Seq C1 exon
GCAGAAGTTGATAGAAGTCATGAGGTTGTGGCTAAGAGGCCTGGCCTGCCAGGCTCTGAGGAGTTCCTGGGGAGTCTGCAGGATTCACACACAGCCACCACCTCCCCCGATCCCTGAGGTGGTAGCTACCTGGGAAGCCATCAGCCTGGGGAGGCAGCCAGTGCCCGAGTACTTCAACTTTGCTCATGATGTGTTGGATGTGTGGAGTCAGCTGGAAAAG
Seq A exon
GTGAGGCTCATCCTTCCCTGGTGTCCCACTCGGGCATCTGAAGTCCCCCAGATACTGTGGTGAGAGTCAAGACTGTAAGATAAGCACATCTCAACACCGTGACCTGGGAACTTGGCAAGTCCTAAAATCGAAACTGTTAGCACTAAAGCCTGAGGCCTGAAGGGGACAAATTAGACCCACGTGGTGTGAGCCAGACATACCTTGAACCATGTGCTTAAAGTGTCACTCGGTCTGAGCCCAGATCACAGAGGACATCTGTGCCTGCTCTGTGTCCTCTTCCGATGGATTCTATAAGCAGAAGGGAGCTCTGTTATGATGATATTCTGTCTCTTGTGCTCTGTGCTCTTCCCTTCGGAGTAGGAGAAATGGGGGCTTTCATCTCTAGACTTTAACCAAATAAACTCTTCCCTAAATTGCCTTTTGGTCATGGAATTTTATCAAAGCAACAAAAACTAACAGTTATGCAACCTTGCAGAACTTTTCTAAAAAAAAAAAAAAATCAATGAGTTGTGGGCTTTTATGTAGTGATTTGTGGGTGAAGTGGGGTAATGGTTTAATTAAACAGGGAGGAACGTGGGAGAGTGTAAGTCGTCTTACCTTTTACATTAAAATGTTGGTATGGGAAATTTGCTTATGTTTGTCTAACTCAACACTGAGAGGATACATAAGTAACAAATAAAACTGACCACTCTCTGACCTACAGGGAAAGTGCAAACCTTTTGGTTTGTGTTTGACTGGTTGGCTTTTAGTTTTATGAAGGAAGGTCTCATGTAGACAAGGCTAGCCCTAAATTCACTATGCAGTCACCCATGACCTTGGATTCCTGATCCTCTTGCTTCTGTCTCCTAAGTCCTGGATTTACAGGCATGCTACACAGCACCTGGTTTATTCAATGCTGAGGGCTGAACCCAGAACTTGGTGAATGTCAAGCTAGCACTCCATCAACTGACTCATACCCTTGGCCCATTGTTTTGATTTTTGAACTCAGTGATCAGATAACTTTGTTGTGGGAATTTCCAACCCCAATAAGCCCATATGAAAAACACATAATTCAGTTATTATAATTATAAGCTATAAGCCTATATTGGGCAGATCTAACACTATACTAACTTATTCCCCAGCTATAGGACCCCTTGCTACTTGTGGTTTCTCCTGGCCACATAGTTCTTCTCCATCATGGCTTCCTCCTCCTCTTCTTCTGTTCTTTCCCCTTCCCCTCTCATCCTCTTCTACCTCTCCACCTACCTCCACTCTCAAAACTTCCATCCCAGCTTTCCCCTCCACTGCCCTATCACAGGCTCTAGCTTTCATTGAGCAGTTAAAGTGGGGAGATAGTTCCCATGAGATCACCTGAGTATGTGATGGGCTGCTCATCAGGGGCAAGCCTCTTGAGGAAGCAGTATTAACATGAGAATACAAACAGCACCAGGATAACCTGCAACATTTCCCTCTAATTCTTCAATTAAAAAGGCCCCTTCAATTAAAAAGGCCCCTTCTTCTATGGTAACAAATATATAGGAGGAATTACTCAACACAACGACTGTAAAAAGGTTTTTCTTAAAAAAAACAAATGAGCAAAACCACTCAATAATGGTTTCTATTTTTTTCCTGGCTGCACTCACTGTCCAG
Seq C2 exon
ACAGGGCACCGGCCCCCAAATCCTGCATTCTGGTGGGTGAACGGCTCAGGAACAGAAGTCAAGTGGACATTTGAGGAGCTGGGGAAGCAGTCGAGGAAGGCAGCCAATGTCTTAGAGGGTGTGTGTGGCCTGCAACCTGGAGACAGAATGATGCTGGTGCTTCCGAGACTCCCAGATTGGTGGCTGATCAGCGTGGCTTGTATGCGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030972-Acsm5:NM_178758:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.014
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PU(0.5=3.0)
A:
NA
C2:
PF0050123=AMP-binding=FE(16.9=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:
TCTGCAGGATTCACACACAGC
R:
GCATACAAGCCACGCTGATCA
Band lengths:
351-1980
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: