RnoINT0012388 @ rn6
Intron Retention
Gene
ENSRNOG00000019180 | Acsl4
Description
acyl-CoA synthetase long-chain family member 4 [Source:RGD Symbol;Acc:69401]
Coordinates
chrX:113618607-113620703:-
Coord C1 exon
chrX:113620565-113620703
Coord A exon
chrX:113618758-113620564
Coord C2 exon
chrX:113618607-113618757
Length
1807 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
GTGTCTTTTCACTTATTTAGCAA
3' ss Score
7.47
Exon sequences
Seq C1 exon
GCGGCATTATTAGATATCAATTGTGTTAAACATATCATTTATGTGGATAACAAGACTATCAATAGAGCGGAGTACCCCGAGGGGCTTGAGATTCACAGCATGCAGTCAGTAGAGGAGCTGGGATCCAAGCCAGAAAACT
Seq A exon
GTAAGTAAAGCAGTTGAAACGAAGTTCTTTGTGGATTCATATTTGTTCTTCGACATGAGTAAAAAATGCCGGAGCTGTTTGATTTAAAAGGAGTCAAGACTGCATAGGACAGAACATTTCTTTTTCTTTTTCCTAAAGAAGGCAGTCCTGCCTGAATTTCTTGAAGACAGCAAGCCAACTGTAGGTTAGAGATGAGGCAGATTTTTTTTACCCCTAAGCAACAATGGTCAGAATTGTAGTGTGAACTTTGGGTTTTAAAACACATATATATTATAAGAATGTGATTTCATTTTAAAACCCAGGTGGGGGATTTTGCACGGCAGCTGACTGTGATTTGCCTTGTGCTCTGGCAGGTTTCAGGTTTCGCCAGCTGCTAATCGTTTCTGAGAGTATGTGACATTGGAATTCTGGGGACTCTTTACACGATATATAAATGCTAAGGTCCTGAGAGATGTTGTTGTTGGGTTGTGGGGTGTTGGTAGGTAGCTGTTGGTGCAGATTGTTAAGTAGTTCTGTGCAAAGAAGAAACGAGGAAAATAGATATCCTGATGGGGAGGATCAGACTTGCCCCAAGGAACTCACTGTCCCTAATCAGCAGGAAGTAGTCGAGCAATAGTGACACCCCCTTTCCGCTTTATCCTTTTTTTCTCCCTTATCTAGTGTTTAGTGGGTTGAAAGGGTAGGGGAACTAAGAACCCACAAAGTAACCAAAAGTCTGGCTCCAACAGAGTATCATGTTAGCATTTGTATCATAGAAAAGAAGCCCCGGGGTCAAGTATGTTACTATTTTTACAGTTCTGGGCAGTAAGTGTGCCTTTTCACACAATCCAGAGCAAATCAGTATCTCTTGGCTTCATGCACAGAAATACAGAGAGCCATGGAGAATTGCCTGTTATTGCCAGGTTGATACTGCGAGACTGGTGCATGCTTGCCAGGGAAGTTGGGATCCACTGGCTCTATTATTGCCAGTTCTGATGATTCACCAGAATGTTTGACACACAATTTTAGAAAATACTTCTCAGTCCTTATAATTTTGATTTACTGACATGACATCTGTTTGTTTCCAGGATAAATAGGATCCGTATATTTTTGTTATTATGAGTAAAGAGTCATCATGTGTCAGTAGATATTATACGTAGAGAGCTATGGTATGTTCTAGTGATAGTTTACCTGAGTGGGTAAATACAATGAAGATACATTTTGCACGCTTATTAAAAAATAGGCAAAGATGAGAAATGTCATATTGTGTGTTTGGTCTGCTTCTTCAGTTGGTCCTCAGGTGAGTCCTTTTCTTCCTTGGATCCTACCAATGACTATGGAGATACTGAAGGAGGATTTGATATAGCCTGGTTGTTTCAGCGATATGCTTTCCCTTACCTTCATACAGGGTTTCTGTGTAGCCTGGGCTGTCCCGGAACTTGCAATGTAGATCAGGCTGACCTCAAACTCCACATGGCTCCGCTTCCAGAATTCTTGATTAAAGATGCATACTACCATCCCTGACCTGAACCATTATTTATTGTTCAGGAATCTACACAGGATGCTACCCTTCCCAGTTTTCAAAGCCTTAGGAATTCTCCCCAATTCTGTATATAACACTGTGAAGAGGTTTAGTCAGATGGGGCTAAAAATCGGCTGGATTGAGTTCAGAATCTTTATTTCAATCAACTGGAAGTTGGTAATCATTCTTCATGATTGTTAAACCAGACTAGTTTTGAAATTTGTATGATTATGTGAAATGAAAATAACTTTCTTGTCAAGTAATTCAATGTGGAACTGAAGAAAATGTGTCTTTTCACTTATTTAG
Seq C2 exon
CAAGCATTCCTCCAAGTAGACCAACTCCTTCGGACATGGCCATTGTCATGTACACCAGTGGCTCTACTGGCCGCCCCAAGGGAGTGATGATGCACCATAGCAATCTGATAGCTGGGATGACAGGCCAGTGTGAGCGCATACCTGGATTAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019180:ENSRNOT00000026057:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.234 A=NA C2=0.255
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(9.6=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(10.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGGCATTATTAGATATCAATTGTGT
R:
AATCCAGGTATGCGCTCACAC
Band lengths:
287-2094
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]