MmuINT0123384 @ mm9
Intron Retention
Gene
ENSMUSG00000038902 | Pogz
Description
pogo transposable element with ZNF domain [Source:MGI Symbol;Acc:MGI:2442117]
Coordinates
chr3:94681853-94682190:+
Coord C1 exon
chr3:94681853-94681909
Coord A exon
chr3:94681910-94682077
Coord C2 exon
chr3:94682078-94682190
Length
168 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATA
5' ss Score
8.49
3' ss Seq
CTTCTCTCCTCTTCCCACAGTGG
3' ss Score
10.98
Exon sequences
Seq C1 exon
CAATCATGTTCCACGGAAAAGTCCCAAGTATTTGGCTTTGTTTAAAAATTCTGTAAG
Seq A exon
GTAATAAAACACTTTTTGGTGCTCTTTTGTTAATAATATCAAGTCTTTTTTTATATAAAGTGGTTATGTGACTTACTCCCATATTAAACCTCAAAGTTTAACTTTGTTTAGTGTTATCGCTGTTTGTATCTAATACACTCTTGGTCCTCTTCTCTCCTCTTCCCACAG
Seq C2 exon
TGGAATCAAGCTGGCCTGCACTTCGTGTACCTTTGCTACCTCCGTGGGAGATGCGATGGCCAAGCATTTAGTGTTCAACCCCTCCCACAGATCTAGCAACATCTTACCACGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038902-Pogz:NM_172683:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 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:
CAATCATGTTCCACGGAAAAGTCC
R:
CCCGTGGTAAGATGTTGCTAGA
Band lengths:
170-338
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: