MmuINT0010289 @ mm9
Intron Retention
Gene
ENSMUSG00000030972 | Acsm5
Description
acyl-CoA synthetase medium-chain family member 5 [Source:MGI Symbol;Acc:MGI:2444086]
Coordinates
chr7:126673782-126675494:+
Coord C1 exon
chr7:126673782-126673992
Coord A exon
chr7:126673993-126675286
Coord C2 exon
chr7:126675287-126675494
Length
1294 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
CCTTCTCTGTGTGACCCAAGGTG
3' ss Score
6.34
Exon sequences
Seq C1 exon
ACAGGGCACCGGCCCCCAAATCCTGCATTCTGGTGGGTGAACGGCTCAGGAACAGAAGTCAAGTGGACATTTGAGGAGCTGGGGAAGCAGTCGAGGAAGGCAGCCAATGTCTTAGAGGGTGTGTGTGGCCTGCAACCTGGAGACAGAATGATGCTGGTGCTTCCGAGACTCCCAGATTGGTGGCTGATCAGCGTGGCTTGTATGCGAACAG
Seq A exon
GTCAGTGAGCAAGGTTAGCACTCCTTCCATTAGATCTGAGACTGCCCACCAGAGTTTTGTGCTTCTCACCAATCACAAGATTTGGAAGATGGAACAAAGGGAATCGCATATGGGGTTCACCCTTCCTTTGCCCAGCAATCACAGACCAGATTGCATACAGTGGCCAGACAATGACATGAGGAGAGGAAAAAAAAAAAAAAGAGCTGGGCAGTGGTGGCACACGTCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGTGGATTTCTGAGTTTGAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTTCACAGAGAAACTCTGTCTCAAAAAACCAAAAAAAAAAAAAAAAAGACAACCGCTTAGTAAGGGTGGAAGCATAAGGAGTCCTGCAGTTTTTTAAACACCTACTATGTGCTGGGAACTGTGCTAAGAGATCTGTTCCTGATTTAAAAAAACAAACCCAAAAACTTTTGGTCAGAGTGTTATTTATATTTGCTACCAAATATCTCACTTTTGCCTACCTACAACTTTTATTGCTACTCAGATAAAATAACTCACAGTCACAGTTAATGTTATCATTTTCGGTGGAGCCTCTATTCCAATACAGCAGATAATATCAAAGCTGTCATCAATACGGTTCTGCATCCCTCCATTTTCCTCATACTGAGTTGGATCCCCAGAGCCTATTTTAAAAAGAAAAGAAGCCAAGTGTGATGAGACATGTTTATAATCTCAGCCTTGGGGAGGCAGAGACAGGTGGATCCCTAGGGCTCAACAGCTAGCCAGTTTGGGCCACGAGGCAAGTTCCAAGGCAATGAAATATCATGTCTCAAAAACAAGGTAGATGGTGCTTGAAGAGTGACACCTGAGGTTGTCTCTTGACCTCCTCCAAACACACATATGCATACATAGCACCCTCCACACACACATACACATAGCACACACACACACACATGCATACATAGCACACACACATGTACACATAGCACACACACATGCACACATAGCACACATACACACATAACACACACACATGCACATATAGCACCCAAGCACACACATGCACACATAACACGCACACACACACACACACACACACGTATACATAGCATCCAAACACACACATGCACACATAGCACCCTCCACACACACATACACATAGCACACACACACACATGCATACATAGCATCCAAACACACACATGCACACACAGCACCCATAGTCTTCTACATTTGGATCTTCCTTCTCTCCTAACAATCTCCCTTCTCTGTGTGACCCAAG
Seq C2 exon
GTGTGGTCATGATCCCAGGAGTCTCCCAGCTGACAGCGAAGGATCTCAAGTATCGGCTGCAGGCTGCCAGGGCCAAGTCTATCGTCACCAGTGATGCCCTAGCTCCGCAAGTGGATGCCATCAGTGCTGACTGTCCCTCCCTCCAAACCAAGCTTCTGGTGTCTGACACCAGCCGTCCAGGCTGGATCAATTTCCGAGAACTCCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030972-Acsm5:NM_178758:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(16.9=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(16.7=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:
CCCCCAAATCCTGCATTCTGG
R:
TTTGGAGGGAGGGACAGTCAG
Band lengths:
346-1640
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: