MmuINT0010262 @ mm9
Intron Retention
Gene
ENSMUSG00000030935 | Acsm3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:MGI Symbol;Acc:MGI:99538]
Coordinates
chr7:126910405-126911660:+
Coord C1 exon
chr7:126910405-126910552
Coord A exon
chr7:126910553-126911386
Coord C2 exon
chr7:126911387-126911660
Length
834 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGA
5' ss Score
5.58
3' ss Seq
CATTTTTACCTGTCTTTTAGCTG
3' ss Score
8.84
Exon sequences
Seq C1 exon
GTGAAAGACAAGGAGGTTCAAGCTGGATGATCTCAGAGAGTTCAAGATCACCGACTCGTGAGGTTCTCACACAGGAAGTGGACACCTGGAGCCGCTGGATTTCAAATGCATCCATTTCATCAGCATGATGCCTAGCCACCAGATCCAT
Seq A exon
GTAAGAAGAAGCTGAGCTAATATCTGGCATTTTTTGTCCCGTTTCAATACTTTATCATTACAGAAATGATTTCACATAGCTAGGCTGCCCTACCACGCAGCTAGAATCACTGTTAAAATTATGGTTTAATGATTGTCAGAGTAGTTATGTTTTACTGCAGGAAAATCGTGGGAAGCACAAAGAGCAGAAACTCAGTTCCAATCCCTGCAACACTAACGCTTTATTTTTAATAGCCTCAGCCAAGTAACTGACTTTGTGATCAAATGACTTCCCACAGAAGGAAGGAGGAGTAGGTGGCTGGGGAGGACCTCCCGTCAGGAGCCCTGTTATTATATCTCCAAGTGTGGACTCGATGGTGGTGTGGGCTCTTATTGGGAGCATGGGAACCACAGCCTATAAACCAGACAGACTCTAACCACGGACAGTGCTATCAGACAAAGCTGGTACAGCTACTCTCAGTTCCCTCATCTGCACATAATCTGTGGTGTTTTGATATGACGTTAGATCAGAAGCCTCTGTAGAGTCACAGAACGTTGAGAAATGCATTTCGGATGCAACACTGGGGTAGTCAGGAGAATGGGTGTGGCCCAGACAAATCTGGATTTGAATCCAGCCAATGGCTCTTGTTACTTTATCTGTACACATAGATAGTAATAGTACCTGCTTTATAGGGTCTCTCTAAGGATTTAGTGAGTAGCAAAGCATCAAAGCACAGCATGCCCAGAAAATGACGCTGAGAGGGTGCTGAACAATTATGATAAAACTTAGCTGCTTTGGGGTCTTACTACTTTGCAAACAAAACCCAAATATATGTCATTTTTACCTGTCTTTTAG
Seq C2 exon
CTGGATTAGTCTGCATGGAAATCTCACATGCCAAAACATTCAACAACACTGATGCTAGCTAGCTCTTGTCATCATGGTGATGTTACTCCGTGCTAGGTGTTTTCAGCGCCTAGCAATTCCTGATCCTATGAGAGTCTTGTATAAAGATTACAGAACAGCGACCCCTCAGAACTTTTCCAACTATGAGTCCATGAAACAAGACTTCAAAATAGAGATTCCAGAGTATTTCAATTTTGCAAAAGATGTCCTGGACCAATGGACCAATATGGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030935-Acsm3:NM_016870:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0050123=AMP-binding=PU(0.5=3.0)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGGAAGTGGACACCTGGAG
R:
TTGGTCCATTGGTCCAGGACA
Band lengths:
342-1176
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: