HsaINT0003037 @ hg19
Intron Retention
Gene
ENSG00000183549 | ACSM5
Description
acyl-CoA synthetase medium-chain family member 5 [Source:HGNC Symbol;Acc:26060]
Coordinates
chr16:20442315-20442643:+
Coord C1 exon
chr16:20442315-20442395
Coord A exon
chr16:20442396-20442541
Coord C2 exon
chr16:20442542-20442643
Length
146 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCA
5' ss Score
6.37
3' ss Seq
TGTGATGATTTCCTTACCAGATT
3' ss Score
7.54
Exon sequences
Seq C1 exon
GTTGTCATCTGTGCCAATCCAAAAGGCATGAAAATCAAGTCTGGATCCATGGGGAAGGCGTCCCCACCCTACGATGTGCAG
Seq A exon
GTAGCAGCCTCCCCCAACTTCTGGCAAGGCCTGGCATGGAGAGGAGAAAGACACACAGGCCTGGTTGGCACGGGCTGCTGGGCTGCTGGGAGAGGCCCAGGGTGTAGACACTCACGTATGCACCTCTGTGATGATTTCCTTACCAG
Seq C2 exon
ATTGTGGATGATGAGGGCAACGTCCTGCCTCCTGGAGAAGAGGGGAATGTTGCCGTCCGTATCAGACCCACTCGGCCCTTCTGTTTCTTCAATTGCTATTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000183549-ACSM5:NM_017888:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.265
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
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGTCATCTGTGCCAATCCA
R:
AGCAATTGAAGAAACAGAAGGGC
Band lengths:
178-324
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)