MmuINT0178380 @ mm9
Intron Retention
Gene
ENSMUSG00000039686 | Zer1
Description
zer-1 homolog (C. elegans) [Source:MGI Symbol;Acc:MGI:2442511]
Coordinates
chr2:29958249-29958956:-
Coord C1 exon
chr2:29958837-29958956
Coord A exon
chr2:29958365-29958836
Coord C2 exon
chr2:29958249-29958364
Length
472 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
TGCTGGTTCTCGTTCCCCAGGAG
3' ss Score
8.57
Exon sequences
Seq C1 exon
TGTGACCAGGTCATGGAGTTCTCCTGGAGTGCTCTGTGGAACATCACAGATGAGACACCTGACAACTGCGAGATGTTCCTCAACTTCAATGGCATGAAGCTCTTTCTCGACTGCCTGAAG
Seq A exon
GTAGGCAGTTCCCGGCTGCCACCATCCCACAGGTGCCATCCCACACAAGCCTCCCATGGGCACACAGGGCCAGCCACACACAGACAATGTCTGCTGCTGAGAGACGTGTCAGGAACCTCCTCTCAGCCATGCCGTCCAGCTGTGCCCCCTGTTCTGTTCTGCCTGCCCACAGACCATTCCCTGCTAACAAGATAAAATTCTGCCCAGAATGTAGGACTCTGTTTTGTTGGTAGCTTCTTAGGGGCTCCCCTAAAAGGACTCTTCTGAGCTGTGGCAAGTGGAGCCACAATCCTCCCAAGTCAGCTCTCTTCGGGGCCTCTCTCCTGGTAGCACTGGAGAGTTGGGCTTGGCTTACTGTACCTCTCCTTTGTCTAGAAGGTCCCTTCACACAGGTGCCCACAAAACCTGCAGGGTAACAGTATCAGACATGAAGGGACCAAGTATGAAGGCCTTGCTGGTTCTCGTTCCCCAG
Seq C2 exon
GAGTTCCCAGAGAAGCAGGAGCTACACCGTAACATGCTAGGGCTCTTGGGGAATGTGGCAGAGGTAAAGGAGCTGCGACCTCAGTTGATGACCTCCCAGTTCATCAGCGTCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039686-Zer1:NM_178694:11
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(17.8=100)
A:
NA
C2:
PF032249=V-ATPase_H_N=FE(17.4=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:
CAGGTCATGGAGTTCTCCTGGA
R:
CTGAAGACGCTGATGAACTGGG
Band lengths:
230-702
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: