RnoINT0012456 @ rn6
Intron Retention
Gene
ENSRNOG00000032246 | Acsm3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:RGD Symbol;Acc:62086]
Coordinates
chr1:189527734-189528706:+
Coord C1 exon
chr1:189527734-189527941
Coord A exon
chr1:189527942-189528562
Coord C2 exon
chr1:189528563-189528706
Length
621 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
CTGTAGATTGTCCTTTGCAGATA
3' ss Score
8.29
Exon sequences
Seq C1 exon
GGACAGTTTTAATTCCAGGAACCACTCAGCTGACCCAGAAAGACATCCTCTACAGGCTACAATCTTCAAAATCAAAGTGCATTATTACTGATGATACTTTGGCCCCAGCAGTAGATATTGTAGCAGCTAAATGTGAAAATCTCCACTCCAAATTAATTGTGTCTCAGCACTCCAGAGAAGGCTGGGGGAACCTCAAGGAGATGATGAA
Seq A exon
GTGAGTCCACTTAATTTTAGAACAGTGCCCTACAAAGAAAGGCAGTAATGAAAAGACTATCCAACTCAGTGAGCTCAACAAAAAGAAAAGCAGTAAGTAAGGAGAATATTCAGTGATTGTTACAGAACTAACAGATGGCAGTGCAAGCTTCTGGGTAAGAAGGGGTGTGGTTGAGATAAAATAAATAAGTCAACACAAAGCATTCTCTGAGGAAGAGAATGGTGTATAACTGGCTTATTAAGGAGTTCTCTTGTGAAAGATAGAAAGGGTGAAGAATTGGACAGAGGAAGAAATTCTATGTATTCCCTATGTATTCTATGTATGAAGCTCTGGGCTAACACACTGGGAATTCTGGCCTTTGGATGGATCCTCAGGGCTGTGACAATTGAGTACCCACAATGATCAGTTTTGGATGAGAGCTGTCTCTAGAAGATGCACAATCTTGAAGGTGGCTGCTCATATCTCATAAGTCAAAGGATGGAAACAGAGGTAGCTTTTATCTTGGGGCTGAATCCAAGTCACTGATTCAGACGCAGAAAAGGCCCAAAGCAGATGATGGGTTTTCAAATCCTCCTCAGAGGTCAGTCATTCATAAAAAACACTGTAGATTGTCCTTTGCAG
Seq C2 exon
ATATGCCAGTGACAGCCACACCTGTGTGGACACAAAACACAATGAGTTGATGGCCATCTACTTCACCAGTGGGACGACTGGGCCTCCGAAGATGATTGGACACACCCACAGCAGTTTTGGTTTAGGACTGTCTGTCAACGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000032246:ENSRNOT00000020039:5
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(16.7=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(11.6=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:
GGACAGTTTTAATTCCAGGAACCAC
R:
CAGACAGTCCTAAACCAAAACTGC
Band lengths:
342-963
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]