MmuINT0178914 @ mm9
Intron Retention
Gene
ENSMUSG00000038535 | Zfp280d
Description
zinc finger protein 280D [Source:MGI Symbol;Acc:MGI:2384583]
Coordinates
chr9:72149508-72149813:+
Coord C1 exon
chr9:72149508-72149573
Coord A exon
chr9:72149574-72149673
Coord C2 exon
chr9:72149674-72149813
Length
100 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAG
5' ss Score
6.62
3' ss Seq
TGTGTAATTTTAAAATACAGGTT
3' ss Score
6.13
Exon sequences
Seq C1 exon
ATATTTTGAACAGAGTTAACCCCAGCTCTCATTCAAGAGGAATAAAGAATGGTATACTCAATCGAG
Seq A exon
GTACAGTATTGCTATAGTACTTGAATTGTAAACTAAAATATCTTGAAAAAGTTGATTATATAGAAATGCATTCAATGTGTTGTGTAATTTTAAAATACAG
Seq C2 exon
GTTTTACTGCTTCATTCAAGCCTACAAGTCAACGCTGCCTGAATTCAGCATCAAATCCTGTGGCTGCCTTGCCAGTAAATTTTCATCCTGAATCTAGATCTTCAGATAGCTCTGTTATTGTTCAGCCATTTTCTAAACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038535-Zfp280d:NM_146224:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.212 A=NA C2=0.298
Domain overlap (PFAM):
C1:
PF138361=DUF4195=PU(3.7=66.7)
A:
NA
C2:
PF138361=DUF4195=FE(24.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGAACAGAGTTAACCCCAGCT
R:
AGGTTTAGAAAATGGCTGAACAAT
Band lengths:
202-302
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: