RnoINT0012454 @ rn6
Intron Retention
Gene
ENSRNOG00000032246 | Acsm3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:RGD Symbol;Acc:62086]
Coordinates
chr1:189522288-189523382:+
Coord C1 exon
chr1:189522288-189522561
Coord A exon
chr1:189522562-189523171
Coord C2 exon
chr1:189523172-189523382
Length
610 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
GACTGCTCTGCTTTCCTCAGACT
3' ss Score
7.94
Exon sequences
Seq C1 exon
CTGGAGTAGTCTGCATGGAAATCTCACATTCCAAAACAATTAATAATATTGATACTAGCTATCTCTTGTCACCATGGCAATGTTACTTCGTGCTAGGTGTTTTCACCGCCTAGCAATCCCTGATCCCAGGAGAATCTTGTATAAAGATTACAGAACAGCGATTCCTCAGAACTTTTCCAACTATGAGTCCATGAAACATGACTTCAAAATAGAGATTCCAGAGTATTTCAATTTTGCAAAAGATGTTTTGGACCAATGGACCAATACGGAAAAG
Seq A exon
GTATGGAGCAAATGCCACTTAGACTACAGTGTTTCAGCTGCAAGCATTCATGGCCCCCTGGGGTAGTCAGCAGTGGCTACAGAGAGTTTTGCTGCCAGGAGGAAGTGATCAGTGGAAGTCAATAGCTGCGAGTGACATTTGAAGGTAGAAGGGTACTGCTGAAGTCCCATAATGTACAGAACAGTCTCCAAACATGGACTTGTCTGGCCCACAATGCCAGTGGTTCCATCATGGATGCTTGAGAAAGCCTAGGTTATATTAATGCATTCTTTTTGTTTCTTTCCCACTTTTAAATAAAAAAGGAATAAAAAGTGACTCTGAGAGTCAAAGTGTCAAGAAATGAAGTATAGATACATCCATGAGGGAATGATGGGATATAAGAATTCTAACTGTGGGGTGGGGAGGATCATGATAAATGAGAAAGGACCTGGTCCCAACGAACTGACATGGCTCCCAGCATGTAGAAATAGGAACTTCTGAGTGATCTGCACTTACTTCATGTATGTCCTGACCTCTGAGTTTTCTGCAGAGAATGTGTTTCATTGAGTCAGCTGAAATATAATTTAACTATATAACAACCTCAAGTCCATGACTGCTCTGCTTTCCTCAG
Seq C2 exon
ACTGGAAAAAGACTTTCCAATCCAGCCTTCTGGTGGGTAGATGGAAATGGAAAGGAGGTGAGATGGAGTTTTGAAGAACTTGGGTCTTTATCCAGGAAATTTGCCAACATACTCACAGAAGCCTGTTCCCTGCAAAGAGGAGATAGAGTAATGGTGATTCTGCCCAAGATCCCAGAGTGGTGGCTTGCAAATGTAGCCTGTCTGCGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000032246:ENSRNOT00000020039:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PU(0.5=3.0)
A:
NA
C2:
PF0050123=AMP-binding=FE(16.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTCACCGCCTAGCAATCCC
R:
ACTCTGGGATCTTGGGCAGAA
Band lengths:
353-963
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]