MmuINT0010232 @ mm9
Intron Retention
Gene
ENSMUSG00000033533 | Acsm1
Description
acyl-CoA synthetase medium-chain family member 1 [Source:MGI Symbol;Acc:MGI:2152200]
Coordinates
chr7:126801814-126802714:+
Coord C1 exon
chr7:126801814-126801941
Coord A exon
chr7:126801942-126802614
Coord C2 exon
chr7:126802615-126802714
Length
673 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGT
5' ss Score
8.53
3' ss Seq
CGGAACTCTTGCTTCTCCAGGTA
3' ss Score
9.06
Exon sequences
Seq C1 exon
AATAGCCCAGAGAGCACATCTGAAGTGGAGTGTGGGGACTTTTACAATAGTGGGGATAGAGCGACCATTGATGAAGAGGGCTACATCTGGTTCTTGGGAAGGGGCGATGATGTCATCAATGCTTCCGG
Seq A exon
GTAGGTGTGGCTGGCCCTGGGCTGGTTTTTGAGACCTTCAAATGCCTCATGGCATCTTGCCTACCTGAGGAATGAAGAATACAAATGAAGTTCAAGGAGGGGGAAACATTACATAGTTATGAGGAGGAGCCAAGATTGTAGTGTAGTTACACAGGCCTATAACCCACAGTACTCAGAAAGCTGAGGCAGAAGAATTCCCAAATCCAAAGCTTGTCTGGGCAACAGAGTGATTTCAAGGATAGCATTTGTTAATAAAGAACGTGCCATCCATGTGTGAGAGCCTAAATTCAATCCCTAGTATCTTGAAAGAAAGAAAGGATAGGAAGAGAGGGGAAAACTAAAAATCAAAATGATAAAGTTGCATGCTTAGATGCACAGCATTTTCTAGGACACAATTTGAGGTACTAGGAGAAGCTACGTTAACAGCTCCACAAGAAGCTGTCACTCTGCCTCCTCCCTCACCAGGGGCACACATGAACTATCCCCAGGAACAACTGAGCCACGTAGTTTTAGTACCAAATGCCCCACTCTTCATATTTCGGGTCCAAATTACTACTCTCCGGTCTACAACCTCACCCCTCAGTATCAAGTGCCCATGCAAACCTCAAAGAACAAGGCGTAAGCGATGGTTCTCAGCAGCCCTGGTGTACACTCGGAACTCTTGCTTCTCCAG
Seq C2 exon
GTATCGCATCGGGCCTGTAGAGGTGGAGAACGCCTTGGCGGAGCACCCAGCAGTGGCAGAGTCTGCGGTGGTGAGCAGCCCGGACAAGGATCGAGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033533-Acsm1:NM_054094:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.209 A=NA C2=0.137
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PD(9.9=95.3)
A:
NA
C2:
PF131931=AMP-binding_C=PU(32.1=76.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCCAGAGAGCACATCTGAA
R:
CTCTCCTCGATCCTTGTCCGG
Band lengths:
225-898
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: