GgaINT1005341 @ galGal4
Intron Retention
Gene
ENSGALG00000002200 | ACSM3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:HGNC Symbol;Acc:HGNC:10522]
Coordinates
chr14:14915644-14916223:+
Coord C1 exon
chr14:14915644-14915851
Coord A exon
chr14:14915852-14916079
Coord C2 exon
chr14:14916080-14916223
Length
228 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
CTCATTTGTTTATTTTAAAGAAC
3' ss Score
5.65
Exon sequences
Seq C1 exon
GAACCGTCCCGATTCCTGGCACACAGCAGCTGACAGCAAAGGACATTCTCTATCGCCTACAGAAATCCAAGGCAAAGGGCGTCATCACCAATGACTCTGTGGCATCAACTGTAGAGTCAGTAGAGGCTGACTGCCAGTCTCTGAAGTTCAAGTTGCTGGTGTCAGAGGGCCACCGAGAGGGGTGGCTGAGCTTCAAGGATCTCCTGAA
Seq A exon
GTGAGTAACCACCTATGTGACAGTGTCTCAGCCAGGATAAGAGTGCTTCCGTTTGCTTTGGATGGGAAATGCTGCACGTGCCAATGTGTTCTCATCCTTCTGGGTCTTGTGCAGTGGAAAAATATAAATGGTTTTGGCACTTCTGATTGCTGCAGAGGTTATTTTAAACGTCTTCAGGAATGTGTAAGTCACACAAATCACTTCATTCCTCATTTGTTTATTTTAAAG
Seq C2 exon
AACTGCTCCATCTGATCACCGGTGTGTAACCACAAAGTCTCAACACCCCGTGGCCATCTATTTTACTAGTGGGACAACGGGAGCTCCAAAAATGACAGAACATTCCCACTGCAGCTATGGCATTGGCCTCACAGTGAGTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002200:ENSGALT00000003444:3
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(16.6=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(11.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGACAGCAAAGGACATTCTCT
R:
AGCTGCAGTGGGAATGTTCTG
Band lengths:
296-524
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]