RnoINT0012449 @ rn6
Intron Retention
Gene
ENSRNOG00000032246 | Acsm3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:RGD Symbol;Acc:62086]
Coordinates
chr1:189533280-189534516:+
Coord C1 exon
chr1:189533280-189533381
Coord A exon
chr1:189533382-189534388
Coord C2 exon
chr1:189534389-189534516
Length
1007 bp
Sequences
Splice sites
5' ss Seq
GTAGTAAGA
5' ss Score
3.51
3' ss Seq
TTTTTTTTTTTTTTTTGCAGGAT
3' ss Score
12.74
Exon sequences
Seq C1 exon
ATTTTAGATGAAAATGGCACTATTCTTCCTCCTGGACAAGAAGGGGATATTGCTGTTCAAGTTCTTCCTGATCGACCATTTGGCCTTTTTACTCATTATGTA
Seq A exon
GTAAGAGCTTTATTTTTAAAATATGTTTTTTATTTATTCTTCAAAAGTGTAATTCCAGCATTTGGGACACAGAAGCAGAAAGGCCACAAATTCAAATTCATCCTCAGTTACTACAAAGCCAGTTTGAGGACAGCCTTGAATACCTGAGACCCTATACCAAATGTATTTGGTCACTATTCCTATTTTTATAAAACACACCTAGGAATTTTCCTGACAGATTTATTGCTCTGAATAATAGTCCCACAGACAGGTAATCAAAGAAACAATATCCTTGCCAATATTCCTCTCCTTGGAAGTGAACATCACAGGTAGCTCTTAGCTATGCTTTCCCAACATCCATAGATCCTTTTCAACCAGGAAACGCACACACCCATTTTTCTGAAGTCTAATTAGCTCTCCTCCACTCCAGAGGAACTAGAGAAACAAGAAATAGGGCCACAGGATGAAGTAAATTCATTTCACTAGACACTTTCTCATCTCTAACCATGGTATACAAATTAGAACAGCATTTATATCAATATTCTAAGAGGTCCAGATCATACCTGCCAGTGACCTTTATGGAAGGTAGCAATATTTTGTTGGTTTTCCTCTTATGCCAGTTACAGAACTGGTCTCTTCTTATGCAAACAAAACCAAGCCAAAGAACACATCTGCTCTGGATTAAGCACTGTGCTTAATTCTTTTAACTATCTCTTTCTATGCCAATGTTAGGTATCATTTTGAAAATGGCTTAATTGTGCCTATGCTTCAAATCTCAGGGATGCTGCAACATTTACCTTATGATCTACATAAAACAGCCTCCAGGAGTTGTACCAAGTCTCTGTAACTACGATTTATTCCTTTTACGTTGGGCTAAATCAAAGCTCGAAATTCATTCCTACTTGACCCTGGCCCCTCTTCATTCTGAGGATGCTTTTTCTTTGAACATTTAAAAAATGACTGGACAAAAGAGTCACATTCATACTAATATAAACAAAATGATCCTTTTTTTTTTTTTTTTTTTGCAG
Seq C2 exon
GATAATCCTTCGAAAACAGCTTCAACTCTACGAGGGAATTTCTACATCACTGGGGACAGAGGCTATATGGATGAGGATGGCTATTTCTGGTTTGTTGCAAGATCAGACGATGTCATATTATCCTCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000032246:ENSRNOT00000020039:11
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(8.0=100)
A:
NA
C2:
PF0050123=AMP-binding=PD(9.9=95.3)
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:
TGAAAATGGCACTATTCTTCCTCCT
R:
CCAGAGGATAATATGACATCGTCT
Band lengths:
222-1229
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]