HsaINT0003014 @ hg38
Intron Retention
Gene
ENSG00000215009 | ACSM4
Description
acyl-CoA synthetase medium-chain family member 4 [Source:HGNC Symbol;Acc:HGNC:32016]
Coordinates
chr12:7324273-7324598:+
Coord C1 exon
chr12:7324273-7324400
Coord A exon
chr12:7324401-7324498
Coord C2 exon
chr12:7324499-7324598
Length
98 bp
Sequences
Splice sites
5' ss Seq
TGGGTTTGT
5' ss Score
0.77
3' ss Seq
AAACTTCTTTTCCTCTTCAGGTA
3' ss Score
10.74
Exon sequences
Seq C1 exon
GACAATCCACAGAAAACTGCTGCCACGATAAGAGGAGATTTTTATGTCACTGGAGACAGAGGAGTGATGGACAGTGATGGGTATTTCTGGTTTGTCGGCAGAGCTGATGATGTCATTATATCCTCTGG
Seq A exon
GTTTGTATATTTGCCACTCTGAAGAGGTAACAATTCGACAGGGAGGGAGATCTCTAACTTGGAGGATGTGGTGGTCAAAAACTTCTTTTCCTCTTCAG
Seq C2 exon
GTACCGTATTGGGCCATTTGAAGTGGAGAGTGCACTCATTGAGCATCCAGCAGTTGTTGAATCGGCTGTTGTCAGTAGTCCAGATCAAATCCGCGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000215009:ENST00000399422:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
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
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTGCCACGATAAGAGGAGA
R:
ACAGCCGATTCAACAACTGCT
Band lengths:
180-278
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development