HsaINT1002673 @ hg38
Intron Retention
Gene
ENSG00000215009 | ACSM4
Description
acyl-CoA synthetase medium-chain family member 4 [Source:HGNC Symbol;Acc:HGNC:32016]
Coordinates
chr12:7323234-7323560:+
Coord C1 exon
chr12:7323234-7323314
Coord A exon
chr12:7323315-7323458
Coord C2 exon
chr12:7323459-7323560
Length
144 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
AATTATTTCTTTCATTCCAGATT
3' ss Score
8.73
Exon sequences
Seq C1 exon
GGAATGATTTGTGCCAATCAGAAAGGCCAAGAAATTAAACCAGGTTCAATGGGGAAAGGAATGCTGCCCTATGATGTCCAG
Seq A exon
GTAGGTTGAGAAAATATCTGACTGGTTCAGTAAAGGAGAGAGAACGTTTTCCTTTTCTGCTATTCATTGCACAACTATTCATAAGCTGCTTTCATTTTTGTGAAAAGAAAATTTTAAGACCATCAATTATTTCTTTCATTCCAG
Seq C2 exon
ATTATAGATGAAAATGGCAATGTTCTACCACCTGGCAAAGAAGGGGAAATTGCCCTCAGACTCAAACCTACACGGCCCTTCTGTTTCTTCTCTAAATATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000215009:ENST00000399422:8
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=FE(6.3=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(8.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAATGATTTGTGCCAATCAGA
R:
ATTTAGAGAAGAAACAGAAGGGCCG
Band lengths:
178-322
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains