RnoINT0012485 @ rn6
Intron Retention
Gene
ENSRNOG00000031211 | Acsm5
Description
acyl-CoA synthetase medium-chain family member 5 [Source:RGD Symbol;Acc:1309578]
Coordinates
chr1:189259055-189259988:+
Coord C1 exon
chr1:189259055-189259178
Coord A exon
chr1:189259179-189259907
Coord C2 exon
chr1:189259908-189259988
Length
729 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
TGACACGAGTTTCTCTCCAGGTC
3' ss Score
5.51
Exon sequences
Seq C1 exon
GTACAAGTTCCAGTGCCTCAGACACTGTTTGGCCGGTGGAGAAGCCCTCAACTCTGACGTGAGGGACAAGTGGAAGAACCAGACAGGCCTGGAGATCCATGAAGGCTACGGACAATCAGAAACA
Seq A exon
GTGAGTTGGTGTCTCAGACCTCCTCATCAGAACCCTCGCCCCATCATAGAGGATCACTAACCGACAGCAGTTCCTCACCTCTCCCTGACACCTGACAGAAACTTCCTGGCTCTAGGGCCCTGAAACTGGCTATGGAACACCATTAGCCATGCCTCCTTTTGGTTTAAAGGCAGTCTCAGGTAATTTCCCATATGCCATGGCCCTGCAAAGCAGCTTTCCTGATGCCTCCCATGATTACTCTTTTTGTAGCTATGACAAACTACCTGGCAGAAATGAAGAGGTCCATTGTCACATCCATGTCCAGAATGGTTTCCTTTTCTCAGATGCTCACTGTCCTCTAGAGGATTCTAAATTCAATCCAGCTGACAATAAAGATTAATACTCATAATTGCTCAAGGAAGCTGTCACCCCAGAATAGCCCATGATGTCTTTTTAAATAAAATCTTAAACAGTGAACCCTATAACCATCTTGGTAAGATGTGGGAGTGAGTGAATCTTTCAGCTAAATGACGATTTAGCTCTCTACTCATGAACACCACAAGTGCCTAATGAAGGGCTGTTGGCCATGGACGAAGACGATTTAAAAAATAAGGGAAGAGTTTGAAAGTGAGGGAAAGAAAGATGGTAGAAAAAGAGGAGGAAGAAGAACCAGAATGCAGGTGAGAACCAGCATAGACCAGGAAACAAGGGGATGGAGGCTTCCCATGGTTGACACGAGTTTCTCTCCAG
Seq C2 exon
GTCCTCATCTGTGGCAATTTTAGAGGCTCAACGATCAAGTCTGGATCTATGGGGAAAGCAAGCCCACCTTACGATGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000031211:ENSRNOT00000046025:8
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=0.037
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(9.9=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(6.3=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:
GTACAAGTTCCAGTGCCTCAGA
R:
TCGTAAGGTGGGCTTGCTTTC
Band lengths:
198-927
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]