MmuINT0180535 @ mm9
Intron Retention
Gene
ENSMUSG00000042446 | Zmym4
Description
zinc finger, MYM-type 4 [Source:MGI Symbol;Acc:MGI:1915035]
Coordinates
chr4:126588034-126588528:-
Coord C1 exon
chr4:126588354-126588528
Coord A exon
chr4:126588247-126588353
Coord C2 exon
chr4:126588034-126588246
Length
107 bp
Sequences
Splice sites
5' ss Seq
GTCGTAAGT
5' ss Score
9.9
3' ss Seq
TTGTATTTTGTAATTCTTAGATT
3' ss Score
8.29
Exon sequences
Seq C1 exon
AGACATTTTAAATCCAAAGGATGTGATCAGTGCCCAGTTTGAAAATAGTACCACCAGTAAGGATTTTTGCAGTCAATCATGCTTGTCAACATATGAACTGAAAAAAAAGCCCATTGTTACCATAAACACAAATAGCATTTCAACCAAATGCAGCATGTGCCAGAAGAACGCTGTC
Seq A exon
GTAAGTCACCTCTTTACTGTACACGAATGAGTAAGTTTCATGCTTATGCTTAAAGAACAATGCTTAGTTCTTTGTTTAATGTTTTGATTGTATTTTGTAATTCTTAG
Seq C2 exon
ATTCGACATGAAGTTAATTACCAGAACGTGGTTCATAAGCTCTGCAGTGATGCCTGTTTTTCGAAGTTTCGCTCTGCTAACAACCTCACTATGAACTGTTGTGAGAACTGTGGGGGTTACTGTTATAGTGGCTCTGGACAGTGCCATGTGCTGCAAATTGAGGGGCAGTCTAAGAAGTTTTGTAGTTCAATGTGTGTCACCTCATACAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042446-Zmym4:NM_001114399:8
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:
PF064679=zf-FCS=PD(68.9=52.5),PF064679=zf-FCS=PU(40.0=27.1)
A:
NA
C2:
PF064679=zf-FCS=PD(55.0=31.0),PF064679=zf-FCS=WD(100=62.0)
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:
AGGATGTGATCAGTGCCCAGT
R:
AGTGAGGTTGTTAGCAGAGCG
Band lengths:
248-355
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: