MmuINT0010178 @ mm9
Intron Retention
Gene
ENSMUSG00000031278 | Acsl4
Description
acyl-CoA synthetase long-chain family member 4 [Source:MGI Symbol;Acc:MGI:1354713]
Coordinates
chrX:138783545-138785680:-
Coord C1 exon
chrX:138785503-138785680
Coord A exon
chrX:138783655-138785502
Coord C2 exon
chrX:138783545-138783654
Length
1848 bp
Sequences
Splice sites
5' ss Seq
CACGTAAGT
5' ss Score
10.16
3' ss Seq
GTTTCCTTTTTATCGCGTAGTTG
3' ss Score
6.93
Exon sequences
Seq C1 exon
TTAATTCTTGGGAATTATAAATGGATAAACTATCTTGAAGTGAACTGCAGAGTGAATAACTTTGGAAGTGGCCTCACTGCATTGGGACTGAAACCAAAGAACACCATTGCCATTTTCTGTGAGACCAGGGCAGAGTGGATGATTGCAGCACAGACTTGCTTTAAGTACAACTTTCCAC
Seq A exon
GTAAGTACCTTGCGCATTTTACAGGGGAGAGGGAGCCTTTTGCTGGCATGCACAGTGTGTTCTGAGATGCTTCTGTTTAAAAAAAGCTGATTTTGAAAAGTAAAGCATCTTCATAGCATACTCGAGATTATGGATTTGTTCCTTAGCACTTAGTGTGTGCACGCGAGCACACACACACACACACACACACACACACACACACACACACACACACGGTGTTCCTTAGGTGTTTTTCTTTATGATTATGTCCATAAAACATGACTAGTGTCTAGGAAGATGGCTTGATGGGTAAGCACGTGCTGTGCAAACACAAGGACCTGAGTTTAAATCCCTAAGAATACCCACAAAGCCGCATGAGGTAGCATACGTCTGTACTCCGAGCTCTCCTAAGGCAAGGTGGGAAATGGAAACAAGAAAATTCTTGGAAGCAACAAAAAAGCAATAAGAGACCCTGTCTGAAAGTTGGAAAGTTAAGTCTAATACCCAACATCGTCTTTGGATTTCCATAAACACAAACACACCATAGGCAAATTTGTGCCCACGTTCACAAACACACACACTCACACATACATTATATGCACATAATGTTAAATAAATTAGAACTATAACTAATAACTCATATTAAATAAGGATAGCAACATCTAAGAGTTGGTTTAGGAGCTGAGACCTTAGGAGGTATAATTCAGAATTTTATTTTTTGATTAGAAATGAATTATACTCTAAAAATGTAGAGGTGGAAGGTATGGTTTCTGGACATGATACTACAAAAGGGATTGTTTACAAAATTGTACTTCATTTTTACACGTTGATCTGTCTTTGTTTGACATAGGAAATAAGCATGTGCCAGCAACATTTGGCACTAGAGACACAGGAGAAAAACTGGGTATGCATGTTTCTGGTTGGCAAGTATTTGTTTTTGCCATTGTACAGAAATAATTTTTTTTCAATTTTAATTTTGGTGTATGAGTATATGCCTGCATTTATTTATGTAAATGCACTGCTTGTGTGCTTGGTGAGCAGAAGTCTGGAACTGCAGTCACTGATGGATGTAAGCAGCCATGTGGATGCTGGGACCCGAACCCTTGTTCTCTGCAAGAGCAAGCAAGTCTCTTAGCCACCAAGCCTCTACAACCTCAAGAACTAAGTTTTAAAAATTGAGCATAGAAGAACACCTTGTTGTACCCTAAGTATTTGGTTGTTTCAGGAAATAAGTACTGCGGGTTAAGTGGTAGGGATCAACTTTTATTTCAAACAAAGATAGATGCTACAGAAAAATGTTCCCACAGGTCCTCATAAGGCACCATCAAGCAATAAGAAAAGCGCCTGTTACTGATGCATAGGCTAGTTCTAGTTAGCAGAGGGAGGCTGAATCTCCACATCTGTTGTAAGTTTAGCAGATGTCACTCAATTGCAACTGATTTTACTGTTTATGCTGCTGTCTGGTGAGTCCTCTGGAACACATCCACCAGCCTTGCTAGGTAAGGTATGGAGGTCACCAATGGCATTAGAAATTGAACCCATTGGGGGAAAGTAAAAACCATCTTGGAAGGGGTAAGGACATTTGTGGCTGATCATCTGACTTGATTGAGATCCTGAGGTTTTTAGAAAACTGGCTTACCTATTCTTTGGGACAATGACCAATGAAAGTAATGTGCCACAAGCAAGCCGTTGCTGGGCTGCACTCTGACACAACTTTTCCCAGTTTGATTCCTGGGAATTTGTACGGCCAAGTTTGAGGTCCCCAGACACTATGAAATCAGCTCAAATCATAAAGTGCTTTTGTGTTTGTAAGGCCCGCCTTGAATAATTTGAAGTATACAATTTTCATGTTTCCTTTTTATCGCGTAG
Seq C2 exon
TTGTGACTTTATATGCCACACTTGGCAGAGAAGCTGTAGTTCATGGATTAAATGAATCTGAGGCTTCCTATCTGATTACTAGTGTTGAGCTTCTGGAAAGCAAACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031278-Acsl4:NM_019477:4
Average complexity
IR-S
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(7.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGATAAACTATCTTGAAGTGAACTGC
R:
CTTTCCAGAAGCTCAACACTAGT
Band lengths:
256-2104
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: