MmuINT0178914 @ mm10
Intron Retention
Gene
ENSMUSG00000038535 | Zfp280d
Description
zinc finger protein 280D [Source:MGI Symbol;Acc:MGI:2384583]
Coordinates
chr9:72301701-72302006:+
Coord C1 exon
chr9:72301701-72301766
Coord A exon
chr9:72301767-72301866
Coord C2 exon
chr9:72301867-72302006
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:ENSMUST00000184036:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.226 A=NA C2=0.295
Domain overlap (PFAM):
C1:
PF138361=DUF4195=FE(11.8=100)
A:
NA
C2:
PF138361=DUF4195=FE(24.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
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
- 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