RnoINT0012453 @ rn6
Intron Retention
Gene
ENSRNOG00000032246 | Acsm3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:RGD Symbol;Acc:62086]
Coordinates
chr1:189521311-189522561:+
Coord C1 exon
chr1:189521311-189521458
Coord A exon
chr1:189521459-189522287
Coord C2 exon
chr1:189522288-189522561
Length
829 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGA
5' ss Score
5.58
3' ss Seq
CATTTTTACCTGTCTTTTAGCTG
3' ss Score
8.84
Exon sequences
Seq C1 exon
GTGAAAAACAAGGAGGCTCAAGTGGAAAATCTAGAAGAGCTCAAGATCACTGACTTGTGAGCTTCTCACACAAGGAGGTGGACACCAGGAGCGCCTGGGTTTCAAATGCATCCAGTTCATCAACACGATGCCTAACCACCAAATCCAT
Seq A exon
GTAAGATAAAGCTTGGCTAACATCTGGTATTTTTGTCCTGTTTGAACACTTTATCATTACGGAAATGATTCTACATAGCCAGGCAGCCCTACCACACAGCTAGAATCACTGTTAAAATTATGGTTCAGTGATTGTGAGAGTTAGTTATGTTTTACTGTAGGAAAATCGTGGGAAGCTTAAAGAGCAGAAACTCAGTTACAGTCCTGCAACACTAAAGCTGTATTTTTATAGCCTCAGTCAAGTAACTGCATTTGTGATCAAATTATTTCCCACAGAAGAAAGGAGGAGTAGGTGGCTGGGAGCATCTCCCCTCAGAAGCCCTGTTATTATATCTCCAAGTGTGGACTCGATGGTAGTGTGGGCTCCTATGAGGAGCATGGGAACCACAGCCTATAAACCAGACAGACTCTAACATGGACAGTGCTCTCAGGCCCAGCTGATACTAGCTACTCTCAATTTCTTCATCTGTAGATAGTCTGTGGTGTTTTCATATGACTGTAGGTCAGAAGACTGCAGAGTCACAGAACACTGAGACCTGCATGAGTCAGGAGAATGGGCAGATAGATGTGGATTTGAATCCAAGCCAATGGCTCTGGTTACTTTCTCTATCTGTATACAAAGATAGCAACAGTACCTCCTTTACAGGGTTTCTCTAAGGATTTAATGACAAGAATAGCAAAGCATCAAAGTACAGTGTTTGGCATGTAGGGATACCCAGAAAATGATGTTGAGAGAGTGCTGAACAATTACAATAAAACTTAGCTGCATTGGGGGTCTTACTACTTTGTAAACAAAAGACAAATACATGTCATTTTTACCTGTCTTTTAG
Seq C2 exon
CTGGAGTAGTCTGCATGGAAATCTCACATTCCAAAACAATTAATAATATTGATACTAGCTATCTCTTGTCACCATGGCAATGTTACTTCGTGCTAGGTGTTTTCACCGCCTAGCAATCCCTGATCCCAGGAGAATCTTGTATAAAGATTACAGAACAGCGATTCCTCAGAACTTTTCCAACTATGAGTCCATGAAACATGACTTCAAAATAGAGATTCCAGAGTATTTCAATTTTGCAAAAGATGTTTTGGACCAATGGACCAATACGGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000032246:ENSRNOT00000020039:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0050123=AMP-binding=PU(0.5=3.0)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTCTCACACAAGGAGGTGG
R:
CCGTATTGGTCCATTGGTCCA
Band lengths:
357-1186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]