Pdss2 MGI Mouse Gene Detail - MGI:1918615 - prenyl (solanesyl) diphosphate synthase, subunit 2

Symbol

Pdss2
Name

prenyl (solanesyl) diphosphate synthase, subunit 2
Synonyms

5430420P03Rik, kd, mDLP1, PLMP

Feature Type

protein coding gene
IDs

MGI:1918615
NCBI Gene: 71365
Alliance

gene page
Transcription Start Sites

3 TSS

Sequence Map

Chr10:43097482-43340878 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 10, 22.91 cM, cytoband B2
Mapping Data

4 experiments

SNPs within 2kb

6049 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1918615	protein coding gene	Chr10:43095396-43340878 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0017192	protein coding gene	Chr10:41977238-42236280 (+)
A/J	MGP_AJ_G0017169	protein coding gene	Chr10:40799941-41058223 (+)
AKR/J	MGP_AKRJ_G0017129	protein coding gene	Chr10:41412860-41663302 (+)
BALB/cJ	MGP_BALBcJ_G0017131	protein coding gene	Chr10:40852040-41095796 (+)
C3H/HeJ	MGP_C3HHeJ_G0016952	protein coding gene	Chr10:41779141-42036226 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0017590	protein coding gene	Chr10:43252490-43517987 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0015286	protein coding gene	Chr10:38641673-38879830 (+)
CAST/EiJ	MGP_CASTEiJ_G0016531	protein coding gene	Chr10:41993949-42258001 (+)
CBA/J	MGP_CBAJ_G0016926	protein coding gene	Chr10:45243689-45510327 (+)
DBA/2J	MGP_DBA2J_G0017031	protein coding gene	Chr10:40277289-40519937 (+)
FVB/NJ	MGP_FVBNJ_G0017026	protein coding gene	Chr10:39772023-40014210 (+)
LP/J	MGP_LPJ_G0017108	protein coding gene	Chr10:41986682-42243605 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0017056	protein coding gene	Chr10:45968438-46229486 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0017627	protein coding gene	Chr10:41424164-41691612 (+)
PWK/PhJ	MGP_PWKPhJ_G0016311	protein coding gene	Chr10:40162837-40406183 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0016095	protein coding gene	Chr10:41254097-41528930 (+)
WSB/EiJ	MGP_WSBEiJ_G0016594	protein coding gene	Chr10:41715186-41966303 (+)

Human Ortholog

PDSS2, decaprenyl diphosphate synthase subunit 2

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

PDSS2, decaprenyl diphosphate synthase subunit 2
Synonyms

bA59I9.3, C6orf210, COQ10D3, COQ1B, DLP1, hDLP1
Links

HGNC:23041

NCBI Gene ID: 57107

neXtProt AC: NX_Q86YH6

UniProt: Q86YH6
Chr Location

6q21; chr6:107152562-107459564 (-) GRCh38

MGI Vertebrate Homology

Pdss2 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: PDSS2
Gene Tree

Pdss2

Diseases

1 with Pdss2 mouse models; 1 with human PDSS2 associations

Human Disease

Mouse Models

coenzyme Q10 deficiency disease

IDs

View 1 model

primary coenzyme Q10 deficiency 3

IDs

Click on a disease name to see all genes associated with that disease.

Mutations/Alleles

1 with disease annotations

References

1 with disease annotations

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Phenotype Summary

76 phenotypes from 6 alleles in 6 genetic backgrounds
8 phenotypes from multigenic genotypes
34 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

14
Chemically induced (other)

1
Gene trapped

3
Radiation induced

1
Spontaneous

1
Targeted

8
Genomic Mutations

2 involving Pdss2
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

31 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mutations in this gene result in renal abnormalities leading to early death.

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All GO Annotations

22
GO References

9

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

744
Tissues

23
cDNA Data

22
Literature Summary

3

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase pdss2

ZFIN pdss2

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All Sequences

58
RefSeq

13
UniProt

3
CCDS

CCDS35891.1, CCDS48552.1

Ensembl

ENSMUSG00000038240 (Evidence)
NCBI Gene

71365

			Length	Strain/Species	Flank
genomic	ENSMUSG00000038240	Ensembl Gene Model \| MGI Sequence Detail	243397	C57BL/6J	± kb
transcript	ENSMUST00000095725	Ensembl \| MGI Sequence Detail	2127	Not Applicable
polypeptide	ENSMUSP00000093393	Ensembl \| MGI Sequence Detail	401	Not Applicable

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UniProt

3 Sequences
Protein Ontology

PR:000012522 all trans-polyprenyl-diphosphate synthase PDSS2

(term hierarchy)
EC

2.5.1.91
InterPro Domains

IPR008949 Isoprenoid synthase domain superfamily

IPR000092 Polyprenyl synthetase

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All nucleic 23

cDNA 22

Primer pair 1

Microarray probesets 4

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MGD-MRK-11583, MGI:96674

Summaries

All 63

Developmental Gene Expression 3

Diseases 1

Gene Ontology 9

Phenotypes 34
Earliest

J:5232 Lyon MF, et al., An inherited kidney disease of mice resembling human nephronophthisis. J Med Genet. 1971 Mar;8(1):41-8
Latest

J:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136

TSS for Pdss2:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr93128	Chr10:43097462-43097497 (+)	-2 bp
Tssr93129	Chr10:43097501-43097525 (+)	31 bp
Tssr3188	Chr10:43314469-43314470 (+)	216,988 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 11/19/2024 MGI 6.24