HsaINT0002916 @ hg19
Intron Retention
Gene
ENSG00000068366 | ACSL4
Description
acyl-CoA synthetase long-chain family member 4 [Source:HGNC Symbol;Acc:3571]
Coordinates
chrX:108924227-108924604:-
Coord C1 exon
chrX:108924495-108924604
Coord A exon
chrX:108924366-108924494
Coord C2 exon
chrX:108924227-108924365
Length
129 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
TTTTTCTTTCTGCTCAACAGACT
3' ss Score
9.37
Exon sequences
Seq C1 exon
TTGTGACTTTATATGCCACACTTGGCAAAGAAGCAGTAGTTCATGGGCTAAATGAATCTGAGGCTTCCTATCTGATTACCAGTGTTGAACTTCTGGAAAGTAAACTTAAG
Seq A exon
GTAAATATGAAATTTTCTTTTAATTCATGGTTGCGTTGTCTGGCAGGACAGAAAAATATTCATTCAGTAAGTGAATTTTTGTTGCAGGCTTAAGTTTAATAGCTGTTTTTTTTTCTTTCTGCTCAACAG
Seq C2 exon
ACTGCATTGTTAGATATCAGTTGTGTTAAACATATCATTTATGTGGACAATAAGGCTATCAATAAAGCAGAGTACCCTGAAGGATTTGAGATTCACAGCATGCAATCAGTAGAAGAGTTGGGATCTAACCCAGAAAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000068366-ACSL4:NM_004458:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.149
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(7.5=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(9.6=100)
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:
TGTGACTTTATATGCCACACTTG
R:
GATCCCAACTCTTCTACTGATTGCA
Band lengths:
234-363
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)