MmuINT0019238 @ mm9
Intron Retention
Gene
ENSMUSG00000026755 | Arpc5l
Description
actin related protein 2/3 complex, subunit 5-like [Source:MGI Symbol;Acc:MGI:1921442]
Coordinates
chr2:38868635-38869419:+
Coord C1 exon
chr2:38868635-38868707
Coord A exon
chr2:38868708-38869242
Coord C2 exon
chr2:38869243-38869419
Length
535 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
ACTTTTTCCTTCTTTTATAGGAA
3' ss Score
12.45
Exon sequences
Seq C1 exon
AGGGGACATGCTTCGGGCGTTCCATGCAGCTTTGCGGAACTCACCAATCAACACCAAGAATCAAGCTGTGAAG
Seq A exon
GTAAAGAGGTTGTGCTACAGCTGTCAGGATCAGGACTTTGTGTCCTTAGCAGCAGTTTGAACTCCCCGGGGCCTGGACAGTAACTCTGCATCACTGGGAGTGTGCTGCTACATGGCATTGCTTTTCACCGAAATCATCTGGCAGTCCTCAGATAGTGGTGCAGTGGGTTGCTTGATAACCTTGTCATCTGTAAAGTCTAAGGCCTTGCTGATGTATCAGAAGTAGTGATGCTTGAGGCTGGGCTGAGCCCAGTGGGAGAGCTTGCATATGTATGATCCTGGGTTCAAACCCTGACACCAAAAAAAAGTCATATTACCTATAATAAACTACTTGTTCTCTCCACAGTAAGTGGAGTCACTTATTTGTAAAAATTAGTGAAATTTAATTAAAGCCAAAGAAGTTTAGCTCACCTATGTAGCTCTATCGGGGATGAATTAGAAAGGGTTGGTGTTTCTGGCATGTTTTGTCTATTGGTTTCTTCAGTAGTGTTAGGATTGCAGCTCCTGGCCTCACTTACTTTTTCCTTCTTTTATAG
Seq C2 exon
GAACGAGCCCAGGGTGTAGTCCTGAAAGTACTCACAAACTTTAAGAGCAGCGAAATTGAGCAGGCTGTGCAGTCACTGGACAGAAATGGCATTGATTTGCTAATGAAGTACATTTATAAAGGGTTTGAGAAGCCTACAGAAAATAGCAGTGCAGTGCTACTCCAGTGGCATGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026755-Arpc5l:NM_028809:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.121 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF046999=P16-Arc=FE(16.4=100),PF093845=UTP15_C=FE(20.9=100)
A:
NA
C2:
PF046999=P16-Arc=FE(39.7=100),PF093845=UTP15_C=FE(50.4=100),PF040037=Utp12=PU(91.9=96.6)
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:
AGGGGACATGCTTCGGGC
R:
TCATGCCACTGGAGTAGCACT
Band lengths:
246-781
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: