MmuINT0178889 @ mm10
Intron Retention
Gene
ENSMUSG00000036916 | Zfp280c
Description
zinc finger protein 280C [Source:MGI Symbol;Acc:MGI:2387585]
Coordinates
chrX:48543405-48543703:-
Coord C1 exon
chrX:48543585-48543703
Coord A exon
chrX:48543442-48543584
Coord C2 exon
chrX:48543405-48543441
Length
143 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGT
5' ss Score
8.35
3' ss Seq
AAAGCCTTCTCTGATTTCAGTTA
3' ss Score
5.67
Exon sequences
Seq C1 exon
GGGCATCACTCTAGTGTGCCTTAAATGTGACTTCCTAGCCGATACTTCTGGCTTAGACCGTATGGCTAAACACTTAAATCAACGTAAAACTCATACTTGCCAAGTTGTAATAGAGAATG
Seq A exon
GTATGTACATGTGTCCGTTACTTTGAATTTATGATCTATGGGCCAGTCGTTTTTCTCTATCACAGTGTGAGCTCTTGAAAATTAAATTGATACTCAGTCTTCGTGTATGACATTTGTAAACATAAAGCCTTCTCTGATTTCAG
Seq C2 exon
TTACCGAAAGAGCCGTAACTTCTGAATCCGCTTCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036916:ENSMUST00000076635:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.117
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GCATCACTCTAGTGTGCCTTA
R:
TCAGAAGCGGATTCAGAAGTTACG
Band lengths:
154-297
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