HsaINT0002977 @ hg19
Intron Retention
Gene
ENSG00000166743 | ACSM1
Description
acyl-CoA synthetase medium-chain family member 1 [Source:HGNC Symbol;Acc:18049]
Coordinates
chr16:20648061-20648773:-
Coord C1 exon
chr16:20648693-20648773
Coord A exon
chr16:20648163-20648692
Coord C2 exon
chr16:20648061-20648162
Length
530 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGG
5' ss Score
5.06
3' ss Seq
TCACAGGCCTCTTGCTACAGGTC
3' ss Score
6.39
Exon sequences
Seq C1 exon
GGACTAATTTGTGCCACCTACTGGGGAATGAAGATCAAGCCGGGTTTCATGGGGAAGGCCACTCCACCCTACGACGTCCAG
Seq A exon
GTCTGGTCCTAAGGGCATTGGCAGGGAGCAGTTAGGGCTCAGCGGGGGTTGGACAATTTGACACCAGGTGACAACACCAGCCGCACTTCCCTGCTCCAGTCATCCTTCCTCCTCTCTTCTCATTTATCCCTTCAGTTTCATATGGAGGCCTCAGTTGAAAACTGCATTATTGTGAGCATGAACACCGCTGACCCTGGCAGCCAGGGCATCACACACAGTAGGTAGGAAAGAATACCTAGAGGCTGCACTGGGAGCCCTCTCTAGCAAGTGGTGCTTTTCATTTTTTTTGATCACTGTTTTCCAACTTGAAGACACATTGGTGACATCTACTAACTCATGAAACATAGACCCTTGGCTTGAGTTTCACATTTGCGTATTTTAAAGGCTTTTGACAGTTTTATTCCATTTTCTGATGTTTCCTCTGTTATTTCATCCACACTGGTGTCCCATGCATAAACCAGACAGTGCTTGGGTGGGGCAGAAGGGCTGCGGCCTCCTGCAGTGTATGATTCACAGGCCTCTTGCTACAG
Seq C2 exon
GTCATTGATGACAAGGGCAGCATCCTGCCACCTAACACAGAAGGAAACATTGGCATCAGAATCAAACCTGTCAGGCCTGTGAGCCTCTTCATGTGCTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166743-ACSM1:NM_052956:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.040 A=NA C2=0.004
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(25.7=100),PF0050123=AMP-binding=PU(6.5=10.7)
A:
NA
C2:
PF0050123=AMP-binding=FE(36.2=100)
Main Inclusion Isoform:
NA

Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACTAATTTGTGCCACCTACTGG
R:
TCATAGCACATGAAGAGGCTCAC
Band lengths:
182-712
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)