RnoINT0012476 @ rn6
Intron Retention
Gene
ENSRNOG00000031211 | Acsm5
Description
acyl-CoA synthetase medium-chain family member 5 [Source:RGD Symbol;Acc:1309578]
Coordinates
chr1:189262282-189262771:+
Coord C1 exon
chr1:189262282-189262409
Coord A exon
chr1:189262410-189262671
Coord C2 exon
chr1:189262672-189262771
Length
262 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
GCTTGACTCTTCTCTTCCAGCTA
3' ss Score
8.19
Exon sequences
Seq C1 exon
GACAATCCTGAGAAGACAGCAGCATCAGAGCAAGGAGACTTTTACATCACTGGGGACCGAGCACATATGGACGAGGACGGCTACTTTTGGTTCGTGGGGAGAAATGATGATGTAATCAACTCTTCAAG
Seq A exon
GTCAGTTTAGCTCTTCCTCTCCTTGAGCATCCAGAGGGGAGGGGAAGTGATGTGAAAAGCTTGACTCTAAAAAAAAAAAAAAGTACAAACTCAGAGCTAGATAAAACAGCACATTTCTGAAATTCAAAAACTCAGATAATTGACATAGGAGGATGTTGAATAAGATCTCCATAACTAGATCCTGTCTGGAAAAGAATAAAAACATTTTTGGTTTATGTTGAAAAAAAAAAAAAGAAAGAAAAGCTTGACTCTTCTCTTCCAG
Seq C2 exon
CTACCGGATTGGGCCTGTGGAAGTAGAGAGTGCACTGGCTGAGCATCCGGCTGTCCTGGAGTCTGCTGTGGTCAGCAGCCCAGACCCCATCCGGGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000031211:ENSRNOT00000046025:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.124 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PD(9.9=95.3)
A:
NA
C2:
PF131931=AMP-binding_C=PU(32.1=76.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAATCCTGAGAAGACAGCAGC
R:
CGGATGGGGTCTGGGCTG
Band lengths:
220-482
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]