HsaINT0002902 @ hg19
Intron Retention
Gene
ENSG00000123983 | ACSL3
Description
acyl-CoA synthetase long-chain family member 3 [Source:HGNC Symbol;Acc:3570]
Coordinates
chr2:223782764-223783920:+
Coord C1 exon
chr2:223782764-223782873
Coord A exon
chr2:223782874-223783781
Coord C2 exon
chr2:223783782-223783920
Length
908 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
GAATGTTGGTGTATTTCTAGGAT
3' ss Score
5.84
Exon sequences
Seq C1 exon
TTGTTACATTATATGCCACTCTAGGAGGTCCAGCCATTGTTCATGCATTAAATGAAACAGAGGTGACCAACATCATTACTAGTAAAGAACTCTTACAAACAAAGTTGAAG
Seq A exon
GTGAGGACTCTAGTTACTTTCTAACTGTCTGATACTTTAGAATTTTCAGTGTCATGAGCCCTATTATTGATACTTAGTTCTTTTATGACTTTTAAGTCCTTAATCTTTGTGGACTTTTATGAATATCATACTTTATTTTTTCCTTTAGAAAATAAAAAGTAGATTTTGTATATATTCATGTATAAGTAATCCAGAGTTATAAATTGTTAAGATGCCTATGTTTAAATTGAAGAAATTACGACTACTTTTTCTCTTATTGTGCTCATCTATTTTCTAGTTTACTTTTAGTAAATTTGTAATTTTGAAGGGTTATATTTTAAACTAGTAATTTTTATTTTACTTCTGAAGCATTAAGTAATTACAAGTTTTCAGAATTGTTTGGAAGTTAAAAAGGGAGACTTTTAATTATATTACAGTAAAAAGAGTTTCTTTGGTCTCTAGACAACTCCCAGAAATATCTGGGCTATTCTATATGGGGGAAGGAGGAGAAAATTCACATGTAAACTTGTTCAAAAAGAAAATTTTGAACAAGTTTGCATGTGAATTTTCTCCTCCTTCCCCCATATATTTTTATGTAGTCTCTTGAAAATATGAGGGGCTTCTGGTTTCTCTACAGTTTAGGCAACCTGTGTTTACATGCCCGTTTTATAAGGCAGTACCCTTCTTGATCAGGGTTTTACCAAAGGCCAAGGGTACACACAGTGAATCTAATGCTATAAAATAATAATTTAAATTCAGACCAATACTTAATCATCTGTAAAAAGTGATATTATGCCAGTGTACCCTTTCTTCTTTCTTTTTTGAGGCAAGAAATTACTTAATGATTCACCGAATATGGTAAACTAGTATTCTTATTCGCTAAGCTGCTTGAAAAATAATGAACGTGATGAATGTTGGTGTATTTCTAG
Seq C2 exon
GATATAGTTTCTTTGGTCCCACGCCTGCGGCACATCATCACTGTTGATGGAAAGCCACCGACCTGGTCCGAGTTCCCCAAGGGCATCATTGTGCATACCATGGCTGCAGTGGAGGCCCTGGGAGCCAAGGCCAGCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000123983-ACSL3:NM_004457:6
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=0.021
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(25.5=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(32.6=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:
TTACATTATATGCCACTCTAGGAGGT
R:
CCATGCTGGCCTTGGCTC
Band lengths:
246-1154
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)