MmuINT0178379 @ mm9
Intron Retention
Gene
ENSMUSG00000039686 | Zer1
Description
zer-1 homolog (C. elegans) [Source:MGI Symbol;Acc:MGI:2442511]
Coordinates
chr2:29958837-29959100:-
Coord C1 exon
chr2:29959059-29959100
Coord A exon
chr2:29958957-29959058
Coord C2 exon
chr2:29958837-29958956
Length
102 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGC
5' ss Score
9.89
3' ss Seq
GAGCTGTGCCTCCCCCACAGTGT
3' ss Score
7.81
Exon sequences
Seq C1 exon
ACCATGTTGAAGCTGATCCAGAAGAAACTGCTGGACAAGACG
Seq A exon
GTAAGCAGAGCTCACACACTCTGCTCTCACCCCAGAGCCTTCTGTGTCAGAGTTGGCCATGTGTCCTCAGGAGGACATAGCTGAGCTGTGCCTCCCCCACAG
Seq C2 exon
TGTGACCAGGTCATGGAGTTCTCCTGGAGTGCTCTGTGGAACATCACAGATGAGACACCTGACAACTGCGAGATGTTCCTCAACTTCAATGGCATGAAGCTCTTTCTCGACTGCCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039686-Zer1:NM_178694:10
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:
PF032249=V-ATPase_H_N=FE(5.9=100)
A:
NA
C2:
PF032249=V-ATPase_H_N=FE(17.8=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:
ACCATGTTGAAGCTGATCCAGA
R:
CTTCAGGCAGTCGAGAAAGAGC
Band lengths:
162-264
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: