MmuINT0179855 @ mm9
Intron Retention
Gene
ENSMUSG00000055150 | Zfp78
Description
zinc finger protein 78 [Source:MGI Symbol;Acc:MGI:107783]
Coordinates
chr7:6323666-6324103:+
Coord C1 exon
chr7:6323666-6323812
Coord A exon
chr7:6323813-6324012
Coord C2 exon
chr7:6324013-6324103
Length
200 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
ACTAAACTCTCTTGTCCTAGGTT
3' ss Score
7.79
Exon sequences
Seq C1 exon
TTCCCTAATCCCTGAGAGGATGGGTTGGAGGAAGACATCCCATTTAGGACTGCGTGTTCCAAGATCTCTCGCTCTGTGTACACTGTCCAGGAGCTTGTCTTTGTGTCAGTTCTCATCTCCTGCCAGAGGACGCTTCTTTGATAATGG
Seq A exon
GTGAGCATCACACAGATCTGATTCCCAGCTTGGTGTCGTAGGTGATTTTAGATCCAGTCACATTGACAGTGAGGGTGAAGCATCATGCTTGCTCACAGCCAGCTAAACCTGGGAGGAAAGAAAGACAAGGAGCCATTTACACTGGTAATGTTGGGGGAAGGATGAAGACCTTGGCTTTCAACTAAACTCTCTTGTCCTAG
Seq C2 exon
GTTGGACTTCCCAGGATACAGTTGTTCTCCAAGAGAGAAGCCAGGAGGAGGATAAGACATGACAGTTGAACTAATGAAAGCCATGCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000055150-Zfp78:NM_177888:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
NA
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTAATCCCTGAGAGGATGGG
R:
CTGTAGCATGGCTTTCATTAGTTCA
Band lengths:
236-436
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: