HsaINT0003027 @ hg19
Intron Retention
Gene
ENSG00000183549 | ACSM5
Description
acyl-CoA synthetase medium-chain family member 5 [Source:HGNC Symbol;Acc:26060]
Coordinates
chr16:20448374-20448689:+
Coord C1 exon
chr16:20448374-20448501
Coord A exon
chr16:20448502-20448589
Coord C2 exon
chr16:20448590-20448689
Length
88 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAAG
5' ss Score
1.99
3' ss Seq
AGTTTGTTTTTCCCTTCCAGCTA
3' ss Score
9.39
Exon sequences
Seq C1 exon
GACAATCCTGAGAAGACAGCTGCATCAGAACAAGGGGACTTTTACATCACAGGGGACCGAGCTCGCATGGACAAGGATGGCTACTTTTGGTTCATGGGAAGAAACGACGATGTGATCAATTCTTCAAG
Seq A exon
GTCAAGCTGTCTGCACTTTCCTCCTTCCTTTGAAATTTCATGGGGGTTGAGGGAAGCCCACTTGGAAGAGTTTGTTTTTCCCTTCCAG
Seq C2 exon
CTACCGGATCGGGCCTGTTGAAGTGGAAAGTGCCCTGGCAGAGCATCCTGCTGTCCTGGAGTCGGCTGTGGTCAGCAGCCCAGACCCCATCAGGGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000183549-ACSM5:NM_017888:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.163 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PD(9.9=95.3)
A:
NA
C2:
PF131931=AMP-binding_C=PU(32.1=76.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGCTGCATCAGAACAAGGG
R:
CGACTCCAGGACAGCAGGAT
Band lengths:
177-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)