RnoINT0012486 @ rn6
Intron Retention
Gene
ENSRNOG00000031211 | Acsm5
Description
acyl-CoA synthetase medium-chain family member 5 [Source:RGD Symbol;Acc:1309578]
Coordinates
chr1:189259908-189260210:+
Coord C1 exon
chr1:189259908-189259988
Coord A exon
chr1:189259989-189260108
Coord C2 exon
chr1:189260109-189260210
Length
120 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
TGCTATGACCTCTCTGTTAGATT
3' ss Score
6.53
Exon sequences
Seq C1 exon
GTCCTCATCTGTGGCAATTTTAGAGGCTCAACGATCAAGTCTGGATCTATGGGGAAAGCAAGCCCACCTTACGATGTGCAG
Seq A exon
GTAGGCTGCCTCTGTGACAGTGCACTGAGCAATCTATGCTCTGGGGGATGCAGGGTGACCTTTTGAGTAACTTGGCTGTACAAAGGATGCTCAGATGCCATGCTATGACCTCTCTGTTAG
Seq C2 exon
ATTGTAGACGAGGAGGGTAATGTCCTGCCTCCAGGAAAAGAGGGAAATATTGCCATCCGCATCAAACCTACTAGACCCTTCTGTCTCTTCAACTGCTATCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000031211:ENSRNOT00000046025:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.037 A=NA C2=0.127
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCTCATCTGTGGCAATTTTAGA
R:
AGCAGTTGAAGAGACAGAAGGG
Band lengths:
178-298
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]