RnoINT0012369 @ rn6
Intron Retention
Gene
ENSRNOG00000014718 | Acsl3
Description
acyl-CoA synthetase long-chain family member 3 [Source:RGD Symbol;Acc:70552]
Coordinates
chr9:84574912-84577034:+
Coord C1 exon
chr9:84574912-84575089
Coord A exon
chr9:84575090-84576924
Coord C2 exon
chr9:84576925-84577034
Length
1835 bp
Sequences
Splice sites
5' ss Seq
AGCGTACGT
5' ss Score
7.8
3' ss Seq
GTGTGTTGTTTTCTTTGTAGTTG
3' ss Score
8.41
Exon sequences
Seq C1 exon
GTTATTCTGGGGCACTATAATTGGCTTTCCTATGAAGATGTCTTCATTCGAGCCCTCGATTTTGGAAATGGGTTACAAATGTTGGGCCAGAAGCCGAAGGCCAACATCGCCATCTTTTGTGAGACCAGGGCTGAGTGGATGATTGCTGCGCAGGCGTGTTTCATGTACAACTTCCAGC
Seq A exon
GTACGTATGGGTGACAGGTTCTCTACATAGCCCCGGCTGTCTTCAAACTCACTTGCCTCTTCCTACTGAGCGCTACCACCACACTTGGCTCTAAAGTAATATTTTTTAATAGGTTAACATTTCTGATACTAAGGTTTGCCTTTATTTATTGGAATAGTGTTTGTTAGGGCTTAGATATTCCCTCCCTCCCTCCCTCCCTCCCTCTTTCCATCTATTTTGGAAAAAGAATCTCTCTGGGGAGACCCGGCAGGTCAGATGTTGAGGAGGCTGTCTGTATTTGGTAAAGCAGTCCTGACATACAGGACCCCTGCTCTGCTACCATCCCTCAGGGCCTTTCAAACCTACTTCCATTTTCTTAGTCCACTTCTGCCAGTAGCTACAGTAGCCTCTCAGATATGTCCATAGTGTAACTCCGTGGACTTCCAAGCACTAGGTTGCATGGTAAAGAATCCCAGTGTTGCTGACTTGAGTATTATTGGAGCATTATTTGAGTGGTAACTGTGATGGACTAACCTTGTAAACAGTCCTGAAAGGCCAGTGCCAAAGGTCACAGTAAGTGACTGTGAAACAAAACAATGCTTTCAGCAGATGTTTGTTATACACTGATGATTTTTTTCTATTTCTTTTTTTTTAAGAGTTTTATGTGATGAGTGTTTTGGACACATGTGTATGTGTGCACCAGGTGCATGCAATGCTCACAGAGGCCAGAAGAGAGGGTGCATTCCCTTGGAACTGAAGTTATAGACAGTTGTTAGCCACCATGTGGGTGCTGGGAATTGAACTTGGGTCTTGCCCAGCAATGCTGTTAACCACCGCCACCTCTCCAGCAGTCTTCCTTTACTGTTGTTGGGACAGGGTGTGTCACTGTTTATCCCTGGATGGCCTGGGGACTGTGGCACCTTGAACTCTGCTTGGGACAATGATACGCATTACCACACCTACTTCCACTTTTAAAATTAGGCTCCGCCTTTTTGTTGTCAGAGGTTGGATTTACATTTCTTTTGAGAATGTTTTAAAGGGTCATTGTCATTTTACTTCTAATTCATGTTGTATATATTATATGACTTCAGTGTTTCCAACTTTTTTTCTTTTTGATTTTTCTACTTTAGAATAAACTGTACTGTTTATGAATGCTATCTTTTTCCTTAGTTGGTGTTTTGAGCCAGGGTTTCAGTGTAGCTGGATCAAGTGAGGTGTGATGGCCTCCTTTTACTCTGCAAGTGTTAGGATTATAGGCCTCATCACCACTGTTCTGTTGACATGTGATAGCTAAAATCTGACATTCAATGTGCTGTCTTACTGGCTTGTCCAATGGTTCTCAGCCTGTGGGTTGTGGCCCCTTTCACACAGGAAAACACACATTTATATTATGATTCCTAAGAGTAGCAAAATTATTTTGAAATAGCAACAAAAATAATTTTATGGTTGGAATCACCACAACATGAGGAACTATATTAAAGTGTCAGAGCATTAGGAAGGTTGAGATCCACTCGGCTTGTCCCTTTTCACATTTAGTTCCAAAGTAGCCAACAAGGACAATTTTGACATTGTAGGATAGGTATAACTCCTTTACTGTATATTAGTCCTAGAAGGTAGTGAAGGTGAAACAAACATTAAGAATCTTCAAATACGAGGAATCTTGAGACAGTTAGATGGAGGGGAATAGATGGGATATTGGTTAGAACCTTCGTACACATGCACAGTAGTTCTCCCAGGCTGTCCTGAGAAAGAACTCTCTCTCCTTTATGGTCACGGGGACTTCCAGAGGTGCTGTCTGTGACAGCTGTCTGTGCCCCTTTCTTCTGTGTGACCTGTGTGTGTTGTTTTCTTTGTAG
Seq C2 exon
TTGTTACACTGTATGCGACTCTGGGAGGTCCAGCCATTGTCCATGGACTGAATGAGACAGAGGTGACCAACATCATTACTAGTAAAGAACTCCTGCAAACAAAGCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014718:ENSRNOT00000020161:2
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(12.4=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(7.6=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:
TATTCTGGGGCACTATAATTGGCT
R:
CTTCAGCTTTGTTTGCAGGAGT
Band lengths:
286-2121
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]