MmuINT0180525 @ mm10
Intron Retention
Gene
ENSMUSG00000042446 | Zmym4
Description
zinc finger, MYM-type 4 [Source:MGI Symbol;Acc:MGI:1915035]
Coordinates
chr4:126882215-126882611:-
Coord C1 exon
chr4:126882440-126882611
Coord A exon
chr4:126882311-126882439
Coord C2 exon
chr4:126882215-126882310
Length
129 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGT
5' ss Score
9.65
3' ss Seq
TTATTTACCTGTCTCGTTAGGAG
3' ss Score
7.18
Exon sequences
Seq C1 exon
GGGAGGAAGAAGTCTGTGGTACCTGTGGAACCCAGAAGTCTTATTCAAGGAGCCTTGCAAGGGTGCTCAGTGTCTGGAATGACACTGAAGTATATGTATGGGGTAAATGCCTGGAAGAACTGGGTTCAGTGGAAAAATGCCAAGGATGAACAAGGAGATCTGAAGTGCGGGG
Seq A exon
GTAAGTAGACATTGTATTTTGATGTGTGGATCTAAGAATTAGAAATAAAGTCATAAATATATTCAAAGATGATTAGAGCTTGGTTTTATACAGTCCCACTTGATTACTGTTATTTACCTGTCTCGTTAG
Seq C2 exon
GAGGTGAACTTGCCTCTGCTAGTCCGTGTTCTGACTCCTTAGGAAGTGCTCAAGACCATGCCCTCTCTCAAGAATCCTCAGAGCAAGGCTGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042446:ENSMUST00000106108:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.194 A=NA C2=0.091
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:
TGGTACCTGTGGAACCCAGAA
R:
ACAGCCTTGCTCTGAGGATTC
Band lengths:
248-377
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