RnoINT0012473 @ rn6
Intron Retention
Gene
ENSRNOG00000014726 | Acsm4
Description
acyl-CoA synthetase medium-chain family member 4 [Source:RGD Symbol;Acc:727928]
Coordinates
chr1:189452259-189452559:+
Coord C1 exon
chr1:189452259-189452339
Coord A exon
chr1:189452340-189452457
Coord C2 exon
chr1:189452458-189452559
Length
118 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
CATTATTTCTTTTATTCCAGATT
3' ss Score
8.57
Exon sequences
Seq C1 exon
GGAATAATTTGCGCCAATCGCAAAGGAGAAGAAATTAAACCAGGCTCCATGGGAAAGGGAGTAGTGCCCTACGATGTGCAG
Seq A exon
GTGGGTTGAGAAAAGATCTGATTGGTTCAAGGAAGAAGAGTGCTTTCATGTTCTCCCCTCTCATAGCCTGTTTTCATTTTATACATAAAAATGAAAGACATTATTTCTTTTATTCCAG
Seq C2 exon
ATTATAGATGAACATGGAAATATCCTACCATCGGGCAAGGAAGGGGAGATTGCCCTTAGGCTGGGGTCTGATCGGCCCTTCTGCTTCTTCTCTGAATATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014726:ENSRNOT00000034610:9
Average complexity
IR
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=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
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCCAATCGCAAAGGAGAAGA
R:
ACATATTCAGAGAAGAAGCAGAAGGG
Band lengths:
171-289
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]