RnoINT0012452 @ rn6
Intron Retention
Gene
ENSRNOG00000032246 | Acsm3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:RGD Symbol;Acc:62086]
Coordinates
chr1:189540150-189541224:+
Coord C1 exon
chr1:189540150-189540269
Coord A exon
chr1:189540270-189540614
Coord C2 exon
chr1:189540615-189541224
Length
345 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
CCTCCCCTTAATACCAACAGATA
3' ss Score
7.19
Exon sequences
Seq C1 exon
GTAGTAAAGGCCTTTATTGTCCTAAATCCTGATTACAAACTCCATGATCAAGAACAACTGAAAAAAGAGATTCAGGAGCATGTGAAAAAGACTACAGCACCTTACAAATACCCCAGGAAG
Seq A exon
GTAGGTGTCCTTGTTACAACTGCTACTTGTTTAGTGTTTTGGAAATTTTTCTATTTGTTTTTTTCCTTTTAAATGATCTTTCTCCTTAAATATGCTGTGCAAAAGGTTCCAAACAGAGCTAATGACAATAGTTAATCAAAAAATTCTGAGGTTAAAGTGACGCCCCTAACATAATTCAGTCAATTAGCTCATAATATTAATGTAACAAAACAAACAAACAAACAAACAAAAACCCAACTTCATCCTTTTACCTAGAATTTGAAACAGAGATATTGGGTAACTGGCATGACCTGAATGAAGTCTACAAGTGATGGACTAATTTCTTCCTCCCCTTAATACCAACAG
Seq C2 exon
ATAGAATTTATTGAGGAGCTGCCAAAGACTGTCAGTGGGAAGGTCAAAAGAAATGAACTGAGGAGAAAGGAATGGACAACAACTTAAACTTGGCCCACTAATCACCTGCATATCTACAAGTAAACACAGTGTCTCTGAGTCTACAGGAACCACAGATCACGTGGGCAGACTGCTTTTAAATTGGATTTAAACTATTTTGTAGAATGAAACCATAGGCTGAATTATGAAATCATATAATCACTGAATCCTTCTGCCTTCATGTCAATGTTCCTGTAATTTGCAACATAAAATGAATGTTATCAGATGCCGTGATGCCTTAAAATTTATTTTAGGAGCTGTTTCTAAACCAAATCTCTGCCCCATGGGTTTTCAAAACTTAACTGAACAATTCTAATATGCCAATATACAAATCAGAACAAATCTTCAAGCTTTGAAGGAAACTGTCATAATTCTTAGAATACTTACCTAAAAGTTGAGTAGGAATTTTACTAGTCATAATTTTATTCAAGTAATTTAAAAATAGTTTGAAATTTGTTTCAATGTCAAAGTATAAGAGACAGCTGTCATATTCTATGGTTAGTTATTAAATTTAACCTAATAAATATGGTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000032246:ENSRNOT00000020039:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.100 A=NA C2=0.214
Domain overlap (PFAM):
C1:
PF131931=AMP-binding_C=FE(48.1=100)
A:
NA
C2:
PF131931=AMP-binding_C=PD(16.0=44.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCACCTTACAAATACCCCAGG
R:
AGGCATCACGGCATCTGATAAC
Band lengths:
342-687
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]