MmuINT0004442 @ mm10
Intron Retention
Gene
ENSMUSG00000070883 | Ccdc173
Description
coiled-coil domain containing 173 [Source:MGI Symbol;Acc:MGI:1923100]
Coordinates
chr2:69781639-69782118:-
Coord C1 exon
chr2:69781945-69782118
Coord A exon
chr2:69781833-69781944
Coord C2 exon
chr2:69781639-69781832
Length
112 bp
Sequences
Splice sites
5' ss Seq
CACGTACGA
5' ss Score
5.74
3' ss Seq
ATAGTGTGATCTTTTTGTAGTCA
3' ss Score
4.44
Exon sequences
Seq C1 exon
GGAATGAAAGAACAGAAACTTAAAGCCAAGCAAAAGCGTGATGAAGAGATTGAGGCTGAAAGAAAAGTTCTTGATCTGGAGGAAGAAATATACAAAGAAGGAGAAAGAAAGAAGGCCATTGAGAGTGCTAGGCAGTGCCAGTTTCACCAGACGGAGCGAGTGAAGCGCTTTCAC
Seq A exon
GTACGATCTGCTTCTCTTCTACTTACATATGTGGATATTTAACATGCACAGTTAACAGTTTTCCCTATAGCATTATACATCGTTTTCTTAAAATAGTGTGATCTTTTTGTAG
Seq C2 exon
TCAGGACTTCTTCTCAGCAGAGTTATGAAAGAGCGTGATGTCCAGATTCAGTACAAAAAGAATGCAGTGAAATCAGATAAAAAATGGGAGGAGCAAGTGAAGCTCAACGATGAAAAAGCTTTTAAAGAAGACCAAGAGAAAGAAGAAAAACGGCGCAGAGAAAGAGTAGCTCTTGCCGAGGATCATCTGAAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070883:ENSMUST00000094942:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.293 A=NA C2=0.435
Domain overlap (PFAM):
C1:
PF138681=Trichoplein=PU(2.7=15.5)
A:
NA
C2:
PF138681=Trichoplein=FE(19.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCATTGAGAGTGCTAGGCAG
R:
AGATGATCCTCGGCAAGAGCT
Band lengths:
248-360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types