MmuINT0170616 @ mm9
Intron Retention
Gene
ENSMUSG00000043592 | Unc5cl
Description
unc-5 homolog C (C. elegans)-like [Source:MGI Symbol;Acc:MGI:1923839]
Coordinates
chr17:48601501-48602788:+
Coord C1 exon
chr17:48601501-48601763
Coord A exon
chr17:48601764-48602686
Coord C2 exon
chr17:48602687-48602788
Length
923 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
TCTGCTCTGTCTCTCCACAGGTT
3' ss Score
14.79
Exon sequences
Seq C1 exon
TCTCTACACCTGCGTTCTGGAGGCCCCCCTGGGCCAGACAGCCCGCAAGTGGCTGCAGCTGGCCATGTTCTGCTCCCCACTGGTGCCAGGGCAGACACACCTGCAGCTGCGCGTCTACTTCCTGAACAACACTCCCTGCGCCCTGCAGTGGGCTATCACCAATGAACAGCCGCACGGGGGACGCATGCGCGGGCCGTGCCAGCTCTTCGACTTCACTGGGGCCAGAGCAGACCAGTGCCTGAAGCTCAAGTACATCTCTGAGG
Seq A exon
GTAAGAGGGGTGGGCCCCAGGAGGTGAGGGATAGATAGGAGGCTGGATGAGAGGGAGGTTCAGAGCCCCCCTCTAGCCTTCCAGGAAATCCAGAAGCCCCAACTATAAACTAGACATGCGTTCCTAGTGGCCTTGTGAGGATCTCCTGGCCTTGTTCACTTTCCTCTAGCTCCCGCTCAGCCCTTGCCAGCCAGCCAGCCAGCCCAGAACAGAGAGACGCTAGGTGGGAGGCTGGAAGGGAGAGGAACCTTGGGATTGGGAGTTGCGTTCTGAGTTTGTCTGCCTGCCAGGGCCTTTTCTTTTCCTTTCTTTTTTCCCTTCCCGTCCCTTCCCTTCCCTTCCCTTCCCTTCCCTTCCCTTCCCTTCCCTTCCCTTCTTTCTTTCTTTCTTTTTTTTGTTTTGGTTTTTCGAGATAGGATTTCTCTGTGTAGTCCTGGCTGTCCAGGAACTCACTTTGTAGCCAGGCTGGCCTCGAACTCAGAAATCCACCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGCGCCACCACGCCCGGTCAGGCCTTTTTCTTAAAGCTTGAGCTGCTGGCGCTGTTTCTGGAATCCTCCGTGTGGCTGTGGACAGGCACATTTCTGGGGGTATTCTGCTGAAGGGAGGCTGAGGGGCCATGCGTGTGCGCGCGTGTGTGTGCGTGTGTAGTAGTAGTAGTAGTAGTAGTAGTAGTAGTAGTAGTAGTAGTAGAATAGTAGTAGTAGTATAATAATTTATATATAATATACTTTGTACTAGTAGTATAGTCATAGAAACAACCATTTTGAGGTGCCCCCTCAAGCTCACTGATTCCCATTGGCTTGAGACTCTGAGGCCTCCCCGCAACTCCCGTTACAGACTTGTGGAAGGCCTTACCCTCTAAGGCCCTCTGCTCTGTCTCTCCACAG
Seq C2 exon
GTTGGGAGAATGTGGATGATAGCAGTAGCCAGCTGGTTCCACATCTCCACATCTGGCATGGAAAGTGCCCCTTCCGTTCTTTCTGCTTCCGGAGAAAGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000043592-Unc5cl:NM_152823:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.021
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF129462=EGF_MSP1_1=PU(57.1=45.7)
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:
TCTCTACACCTGCGTTCTGGA
R:
CCGGAAGCAGAAAGAACGGAA
Band lengths:
355-1278
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: