MmuINT0178907 @ mm9
Intron Retention
Gene
ENSMUSG00000038535 | Zfp280d
Description
zinc finger protein 280D [Source:MGI Symbol;Acc:MGI:2384583]
Coordinates
chr9:72186553-72186855:+
Coord C1 exon
chr9:72186553-72186671
Coord A exon
chr9:72186672-72186818
Coord C2 exon
chr9:72186819-72186855
Length
147 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
AACTTTTCTTCTGATTTCAGTTT
3' ss Score
7.39
Exon sequences
Seq C1 exon
GGGCATTTCTCTAGTGTGCCTTAATTGTGATTTCCTAACTGACGTTTCTGGCTTAGATAATATGGCTACACACTTAAGTCAGCATGAAACTCATTCTTGCCGAGTTCTAGTAGAGCAAG
Seq A exon
GTATGTATACATAGCTGCTGTTTCAGATACTTTATACTTATTATTATTTTTGGAAAGCCAAAATGTGGGTTCTTTACTAAGTCATTTTATTTCACTAATCATTGTTCATATGCTTATGTAAATATGAAACTTTTCTTCTGATTTCAG
Seq C2 exon
TTTCTGTTTGTATCCCAACTTCTGAACGTCTTTCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038535-Zfp280d:NM_146224:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.008 A=NA C2=0.000
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:
GGGCATTTCTCTAGTGTGCCT
R:
CAGAAAGACGTTCAGAAGTTGGGA
Band lengths:
155-302
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: