MmuINT0170619 @ mm9
Intron Retention
Gene
ENSMUSG00000043592 | Unc5cl
Description
unc-5 homolog C (C. elegans)-like [Source:MGI Symbol;Acc:MGI:1923839]
Coordinates
chr17:48603767-48604354:+
Coord C1 exon
chr17:48603767-48603867
Coord A exon
chr17:48603868-48604240
Coord C2 exon
chr17:48604241-48604354
Length
373 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CACCCTGTTCCCTGCCCCAGGCT
3' ss Score
8.78
Exon sequences
Seq C1 exon
GGCTTGGAAACCAAATACGTTGAAATCCTCAGATTCCAGGCATCGGAGGAAGAGACCTGGGCAGTGCCCCCTCCTGTCTCCCAGCCACCCCTGTGCAACAG
Seq A exon
GTGAGCAAAGGTAGCTTTGGCTGCCAGCTGGGGGAATGTTTGCCAATCCTGTCTCAGCACCAGTAGGTAGAGAGGATGGGTGTGTGTATTCTTGTATGTGGTAGCATGGAGGCGCATGGAAGTCAGAGGTGAATCTTGGGTAGTGTTGAGGTAAATTTGGAGCTGTAGATGGTCAGCAAGCCCCAGAAATCTGCTGGTCTTCTTCTCCCCCTGTGGCTGGGTCACAAGTGCAGGCTACCACACTAGACTGTTCATGTGGGTGCTGATGATTGAACTTGGGACCTCATGACTGTGTGTGGCATCGGATTGAACTGTCCGTCCAGCCCTTGGGCTTGGAACCTTCCTTCAGTAAACACCCTGTTCCCTGCCCCAG
Seq C2 exon
GCTGCCCCCAGAGCTCTTTGAGCAGCTGCAGATGTTGTTGGAGCCCAACAGTGTCACTGGGAATGACTGGCGCAGACTGGCCTCCCACCTGGGTCTCTGTGGCATGAAAATCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000043592-Unc5cl:NM_152823:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.072
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0053117=Death=PU(39.7=79.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
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:
GGCTTGGAAACCAAATACGTTGA
R:
CGGATTTTCATGCCACAGAGAC
Band lengths:
215-588
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: