HsaINT0002901 @ hg19
Intron Retention
Gene
ENSG00000123983 | ACSL3
Description
acyl-CoA synthetase long-chain family member 3 [Source:HGNC Symbol;Acc:3570]
Coordinates
chr2:223781037-223782873:+
Coord C1 exon
chr2:223781037-223781214
Coord A exon
chr2:223781215-223782763
Coord C2 exon
chr2:223782764-223782873
Length
1549 bp
Sequences
Splice sites
5' ss Seq
AGCGTATGT
5' ss Score
6.12
3' ss Seq
GCTGCTGCTTTTCCTTTTAGTTG
3' ss Score
8.55
Exon sequences
Seq C1 exon
GTTATTCTTGGACAGTATAATTGGCTTTCCTATGAAGATGTCTTTGTTCGAGCCTTTAATTTTGGAAATGGATTACAGATGTTGGGTCAGAAACCAAAGACCAACATCGCCATCTTCTGTGAGACCAGGGCCGAGTGGATGATAGCTGCACAGGCGTGTTTTATGTATAATTTTCAGC
Seq A exon
GTATGTAGACTTTCTTATCTTCTGGAAGAATGAACTTAACTGATATTTATTGAAATACTTTACTCTGAAGAGGTTAAAATTCTGATGTTAATTTTCACCCAGTGTCCAGTTAGTGGAGAACTCTGTTGTGACTTGGAATTTTTGGTTTATTTTGGAAAATAAATCAATTATATGACAAATTGTACCAATCAGTGTTGCAGTGAGGCTTGAACCTCTTCATGGGAGACTTTCAGGTCTTGAGAACTAGACCTACACTTAGGGGCCGTTGTTCCAATACCATTTCTCAGGAATCCTCTTTAGAAGTTACTGTCAATTTTGTTCTGTCACCTCTATCAGTAACAACAGTTGACCTCCGAAACACTTCCATACTGAAACCTGGTGAACTTCAAGGTGCAGGTTAAACAATAGAGTTTTCATATTGTAATTATCTGAATGGTAATTGTGGTGGCTCAGTCTGTGAGATAGTTCTGGAAGCATAAGTTCAGAGGTCTCGGTGCCAAAATGTGACAGTAATTTGTGGATGTTTAGTCTCATCCTTCAGATGAAACAGAAAATACACTTTCACCAGATTTCTTGCTGTAAATTCCTCCACCTTTTCTTTTTCTTTTTTTTGAGATGGAGTCTCACTCTGTCGCCAGGCTGGAGTGCAGTGGCACAGTCTCAGGTTACTGCAGCCTCTGCCTCCCGGGTTCAAGCAATTCTCCTGCCTTAGCCTCTCGAGTAGCTGGGACTGCAGGCGCATGCCGCCATGCCCGGCTAATTTTTTGTATTTTTAGTAGAGATGGGGTTTCACCCTGTTGGCCAGGATGGTCTTGATCTCCTGACCTTGTGATCCGCCCACCTCGGCCTCCCAGAGTGCTGGGAATATAAACGTGAGCCACCGTGCTAGGCCTCCTACACCTTTTCTTTTAAACAAACATTCCATTTTTGTTGTCACAGGTTTGGATTTACATTGTTTCTTTTGAGGAGCTTTAAAAGAATTATTTTCAAAGTCATTTTGTGTATCTTTTTTGAGTTAGGCAGAAAGTAAATAAAAATCTACACTATTCATGTTATGTAATTTCAGCATTTCAGAGAATGTTTGTCTTTAGATATTTTTGCTTGAGAATAAACGGTACTGCCACTTGTTTGTGCTCTTTTCTTGACATACACCGTAAATCTGACATTCAGTGTGTCATCCTATTTGTATATGTTCTTTTTCACATTGTAAAGCCAAGTGGCCAACAATTAAGAATTTGAAGTCTTAGAAATCAGTTATAATTCCTTCACAATGTGGTAGTCCCAGAGTAACATCTGTAAGTGAAACAAAATAAAAATTTAAATATCTTCATCTTTAAAAATTGGAAATCTTGGGGCATTTAGGGGAGGATGAGTAGGTGTAATGTTGATTAGTATGATAAGATAACTTTAAAAAACATAACACTTATAGACTGTGGATTTAACAGTTTAGGGCTCCTAATGCGTTATTATGATTCATCTCCACATTCAGAGACTTTACATTTGTAGTTAAATGTTTGAATATTTGACTGGCTGCTGCTTTTCCTTTTAG
Seq C2 exon
TTGTTACATTATATGCCACTCTAGGAGGTCCAGCCATTGTTCATGCATTAAATGAAACAGAGGTGACCAACATCATTACTAGTAAAGAACTCTTACAAACAAAGTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000123983-ACSL3:NM_004457:5
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=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PU(23.4=97.1)
A:
NA
C2:
PF0050123=AMP-binding=FE(25.5=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:
GTTATTCTTGGACAGTATAATTGGCT
R:
TACTAGTAATGATGTTGGTCACCTCT
Band lengths:
262-1811
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)