MmuINT0178380 @ mm10
Intron Retention
Gene
ENSMUSG00000039686 | Zer1
Description
zyg-11 related, cell cycle regulator [Source:MGI Symbol;Acc:MGI:2442511]
Coordinates
chr2:30102729-30103436:-
Coord C1 exon
chr2:30103317-30103436
Coord A exon
chr2:30102845-30103316
Coord C2 exon
chr2:30102729-30102844
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:ENSMUST00000113677:11
Average complexity
IR
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
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
- 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