HsaINT0003023 @ hg19
Intron Retention
Gene
ENSG00000215009 | ACSM4
Description
acyl-CoA synthetase medium-chain family member 4 [Source:HGNC Symbol;Acc:32016]
Coordinates
chr12:7475830-7476156:+
Coord C1 exon
chr12:7475830-7475910
Coord A exon
chr12:7475911-7476054
Coord C2 exon
chr12:7476055-7476156
Length
144 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
AATTATTTCTTTCATTCCAGATT
3' ss Score
8.73
Exon sequences
Seq C1 exon
GGAATGATTTGTGCCAATCAGAAAGGCCAAGAAATTAAACCAGGTTCAATGGGGAAAGGAATGCTGCCCTATGATGTCCAG
Seq A exon
GTAGGTTGAGAAAATATCTGACTGGTTCAGTAAAGGAGAGAGAACGTTTTCCTTTTCTGCTATTCATTGCACAACTATTCATAAGCTGCTTTCATTTTTGTGAAAAGAAAATTTTAAGACCATCAATTATTTCTTTCATTCCAG
Seq C2 exon
ATTATAGATGAAAATGGCAATGTTCTACCACCTGGCAAAGAAGGGGAAATTGCCCTCAGACTCAAACCTACACGGCCCTTCTGTTTCTTCTCTAAATATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000215009-ACSM4:NM_001080454:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
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:
GGAATGATTTGTGCCAATCAGA
R:
ATTTAGAGAAGAAACAGAAGGGCCG
Band lengths:
178-322
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)