MmuINT0178900 @ mm10
Intron Retention
Gene
ENSMUSG00000038535 | Zfp280d
Description
zinc finger protein 280D [Source:MGI Symbol;Acc:MGI:2384583]
Coordinates
chr9:72322453-72323100:+
Coord C1 exon
chr9:72322453-72322610
Coord A exon
chr9:72322611-72322999
Coord C2 exon
chr9:72323000-72323100
Length
389 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
ACTCTTCCTTTCATCTATAGCCA
3' ss Score
9.11
Exon sequences
Seq C1 exon
GTTTATGAACCACATGAAGCACCATTTGGAGCTCGAGAAGCAGAGCAGCGAGAGCTGGGAGAAGCACACCACGTGCCAGCACTGCTACCGGCAGTTCCCCACGCCCTTCCAGCTCCAGTGCCACATCGAGAGCACCCACACTCCTCATGAGTTCTCCA
Seq A exon
GTGAGTTACTTCTCAGGATTAAGGAAGCTCAGCAAATCTTGAGAAAACTGTTACAGAAATAAGAACAAGAAATAGACTTTGGATTTTGGGGCCAAAATTACAAAAGCTAACTTACTTCAGGCTTCAGTTCAAATCCCAGATGTTTGTCTTGGTGTAGTAGCTACATAAGTTCAGGCAGGTTATTTGGTACTGAGACAATAGGATAACAGACATGCCTTTGTGGTAGTGCTAAAAGAGGAATTGACTGAGTTATGCATGTGTATATGTATGGCTGCTTACCACCTCTAATACTGCCACTTCTGCTGACAAATTTGTTGACACTGTTATCCAAATGAGCTTTTATTATTTATATATTAAAATGTTGTAATAACTCTTCCTTTCATCTATAG
Seq C2 exon
CCATTTGTAAGATCTGTGAGCTATCATTTGAAACTGAACAGATTCTCTTACAACATATGAAGGATAACCATAAGCCTGGTGAAATGCCATACATCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038535:ENSMUST00000184036:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF139121=zf-C2H2_6=PU(0.1=0.0)
A:
NA
C2:
PF139121=zf-C2H2_6=PD(92.6=73.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATGAACCACATGAAGCACCA
R:
GGCAGATGTATGGCATTTCACC
Band lengths:
254-643
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