Yod1 MGI Mouse Gene Detail - MGI:2442596

Symbol

Yod1
Name

YOD1 deubiquitinase
Synonyms

6330564D18Rik, 9930028C20Rik

Feature Type

protein coding gene
IDs

MGI:2442596
NCBI Gene: 226418
Alliance

gene page
Transcription Start Sites

5 TSS

Sequence Map

Chr1:130645064-130652093 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 1, 56.89 cM
Mapping Data

1 experiment

SNPs within 2kb

162 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2442596	protein coding gene	Chr1:130645064-130652095 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0016439	protein coding gene	Chr1:134109610-134120222 (+)
A/J	MGP_AJ_G0016422	protein coding gene	Chr1:129151840-129158842 (+)
AKR/J	MGP_AKRJ_G0016387	protein coding gene	Chr1:132957451-132964453 (+)
BALB/cJ	MGP_BALBcJ_G0016382	protein coding gene	Chr1:129483308-129490671 (+)
C3H/HeJ	MGP_C3HHeJ_G0016208	protein coding gene	Chr1:133092855-133099928 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0016843	protein coding gene	Chr1:139097768-139105561 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0014557	protein coding gene	Chr1:122297985-122304949 (+)
CAST/EiJ	MGP_CASTEiJ_G0015788	protein coding gene	Chr1:132081049-132088001 (+)
CBA/J	MGP_CBAJ_G0016180	protein coding gene	Chr1:143893681-143904644 (+)
DBA/2J	MGP_DBA2J_G0016287	protein coding gene	Chr1:128115331-128122588 (+)
FVB/NJ	MGP_FVBNJ_G0016286	protein coding gene	Chr1:126758644-126765967 (+)
LP/J	MGP_LPJ_G0016358	protein coding gene	Chr1:135427220-135436057 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0016311	protein coding gene	Chr1:149665578-149673640 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0016879	protein coding gene	Chr1:132721017-132728039 (+)
PWK/PhJ	MGP_PWKPhJ_G0015574	protein coding gene	Chr1:127086964-127093911 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0015361	protein coding gene	Chr1:131645413-131653532 (+)
WSB/EiJ	MGP_WSBEiJ_G0015850	protein coding gene	Chr1:132681964-132690035 (+)

Human Ortholog

YOD1, YOD1 deubiquitinase

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

YOD1, YOD1 deubiquitinase
Synonyms

DUBA8, OTUD2, PRO0907
Links

HGNC:25035

NCBI Gene ID: 55432

neXtProt AC: NX_Q5VVQ6

UniProt: Q5VVQ6
Chr Location

1q32.1; chr1:207043849-207053116 (-) GRCh38

MGI Vertebrate Homology

Yod1 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: YOD1
Gene Tree

Yod1

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Phenotype Summary

17 phenotypes from 2 alleles in 2 genetic backgrounds
3 phenotypes from multigenic genotypes
12 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

9
Chemically induced (other)

2
Endonuclease-mediated

3
Radiation induced

1
Targeted

3
Genomic Mutations

3 involving Yod1
Incidental Mutations

APF
Find Mice (IMSR)

25 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a knock-out allele show increased susceptibility to methicillin-resistant Staphylococcus aureus (MRSA) infection with increased MRSA-induced septic death and NLRP3 inflammasome-mediated coagulation activation.

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All GO Annotations

32
GO References

5

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

748
Tissues

30
cDNA Data

12
Literature Summary

1

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase yod1

ZFIN yod1

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All Sequences

39
RefSeq

2
UniProt

2
CCDS

CCDS48351.1

Ensembl

ENSMUSG00000046404 (Evidence)
NCBI Gene

226418

			Length	Strain/Species	Flank
genomic	226418	NCBI Gene Model \| MGI Sequence Detail	7030	C57BL/6J	± kb
transcript	NM_178691	RefSeq \| MGI Sequence Detail	6126	C57BL/6
polypeptide	Q8CB27	UniProt \| EBI \| MGI Sequence Detail	343	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000017541 ubiquitin thioesterase OTU1

(term hierarchy)
PDB

2KZR
EC

3.4.19.12
InterPro Domains

IPR048857 OTU1, Ubl domain

IPR003323 OTU domain

IPR038765 Papain-like cysteine peptidase superfamily

IPR029071 Ubiquitin-like domain superfamily

IPR013087 Zinc finger C2H2-type

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All nucleic 12

cDNA 12

Microarray probesets 5

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MGI:1923440

Summaries

All 37

Developmental Gene Expression 1

Gene Ontology 5

Phenotypes 12
Earliest

J:134667 Roderick TH, et al., Two radiation-induced chromosomal inversions in mice (Mus musculus). Proc Natl Acad Sci U S A. 1970 Oct;67(2):961-7
Latest

J:350806 Liu C, et al., YOD1 protects against MRSA sepsis-induced DIC through Lys33-linked deubiquitination of NLRP3. Cell Death Dis. 2024 May 24;15(5):360

TSS for Yod1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr8560	Chr1:130643867-130643908 (+)	-1,176 bp
Tssr8561	Chr1:130644797-130644817 (+)	-257 bp
Tssr8562	Chr1:130644821-130644835 (+)	-236 bp
Tssr8563	Chr1:130645057-130645070 (+)	0 bp
Tssr8564	Chr1:130645239-130645298 (+)	205 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 12/10/2024 MGI 6.24