Pla2g2a MGI Mouse Pseudogene Detail - MGI:104642 - phospholipase A2, group IIA (platelets, synovial fluid)

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Pla2g2a Pseudogene Detail

Symbol

Pla2g2a
Name

phospholipase A2, group IIA (platelets, synovial fluid)
Synonyms

EF, Enhancing factor, modifier of Min1

Feature Type

polymorphic pseudogene

BioType Conflict
IDs

MGI:104642
NCBI Gene: 18780
Alliance

gene page
Transcription Start Sites

12 TSS
Candidate for QTL

1 QTL

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Sequence Map

Chr4:138559171-138562497 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 4, 70.57 cM
Mapping Data

15 experiments

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SNPs within 2kb

202 from dbSNP Build 142
Strain Annotations

18
PCR

2
RFLP

6

Strain-Specific Marker

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates	Select Strains
C57BL/6J	MGI_C57BL6J_104642	polymorphic pseudogene	Chr4:138559168-138562500 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0009943	polymorphic pseudogene	Chr4:141618742-141622071 (+)
A/J	MGP_AJ_G0009927	polymorphic pseudogene	Chr4:135542164-135545493 (+)
AKR/J	MGP_AKRJ_G0009910	polymorphic pseudogene	Chr4:139420219-139423542 (+)
BALB/cJ	MGP_BALBcJ_G0009911	polymorphic pseudogene	Chr4:136217521-136220852 (+)
C3H/HeJ	MGP_C3HHeJ_G0009843	polymorphic pseudogene	Chr4:139792914-139796237 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0010160	polymorphic pseudogene	Chr4:146643354-146646683 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0008953	polymorphic pseudogene	Chr4:128522662-128525995 (+)
CAST/EiJ	MGP_CASTEiJ_G0009661	polymorphic pseudogene	Chr4:137968995-137972331 (+)
CBA/J	MGP_CBAJ_G0009817	polymorphic pseudogene	Chr4:150860650-150863973 (+)
DBA/2J	MGP_DBA2J_G0009845	polymorphic pseudogene	Chr4:135925528-135928859 (+)
FVB/NJ	MGP_FVBNJ_G0009863	polymorphic pseudogene	Chr4:134953702-134957029 (+)
LP/J	MGP_LPJ_G0009940	polymorphic pseudogene	Chr4:141704020-141707349 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0009829	polymorphic pseudogene	Chr4:154805420-154808749 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0010131	polymorphic pseudogene	Chr4:139953062-139956391 (+)
PWK/PhJ	MGP_PWKPhJ_G0009582	polymorphic pseudogene	Chr4:132787909-132791240 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0009413	polymorphic pseudogene	Chr4:135709760-135713092 (+)
WSB/EiJ	MGP_WSBEiJ_G0009765	polymorphic pseudogene	Chr4:140194989-140198312 (+)

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Human Ortholog

PLA2G2A, phospholipase A2 group IIA

Vertebrate Orthologs

2

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

PLA2G2A, phospholipase A2 group IIA
Synonyms

MOM1, PLA2, PLA2B, PLA2L, PLA2S, PLAS1, sPLA2
Links

HGNC:9031

NCBI Gene ID: 5320

neXtProt AC: NX_P14555

UniProt: P14555
Chr Location

1p36.13; chr1:19975431-19980434 (-) GRCh38

MGI Vertebrate Homology

Pla2g2a stringent orthology
1 human;1 mouse;1 rat
HCOP

vertebrate homology predictions: PLA2G2A
Gene Tree

Pla2g2a

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Diseases

4 with human PLA2G2A associations

				Human Disease	Mouse Models
				cholecystolithiasis IDs cholecystolithiasis DOID:11151 MESH:D041761 NCI:C34443 UMLS_CUI:C0947622
				colorectal cancer IDs colorectal cancer DOID:9256 ICD10CM:C18.9 KEGG:05210 MESH:D015179 NCI:C2956 NCI:C4978 OMIM:114500 UMLS_CUI:C0009404 UMLS_CUI:C0346629
				gastroesophageal reflux disease IDs gastroesophageal reflux disease DOID:8534 ICD10CM:K21.9 ICD9CM:530.81 MESH:D005764 NCI:C26781 OMIM:109350 UMLS_CUI:C0017168
				human immunodeficiency virus infectious disease IDs human immunodeficiency virus infectious disease DOID:526 ICD10CM:B20 ICD9CM:042 ICD9CM:042-042.99 MESH:D015658 NCI:C3108 UMLS_CUI:C0019693

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

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Phenotype Summary

3 phenotypes from multigenic genotypes
46 phenotype references

All Mutations and Alleles

8
Chemically induced (other)

2
Endonuclease-mediated

2
Spontaneous

2
Targeted

1
Transgenic

1
Genomic Mutations

3 involving Pla2g2a
Find Mice (IMSR)

7 strains or lines available

Mutations in this gene influence susceptibility to intestinal adenomas.

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All GO Annotations

47
GO References

21

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

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

858
Tissues

142
cDNA Data

23
Literature Summary

6

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas

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All Sequences

36
RefSeq

3
UniProt

2

Ensembl

ENSMUSG00000058908 (Evidence)
NCBI Gene

18780

Representative Sequences				Length	Strain/Species	Flank
	genomic	ENSMUSG00000058908	Ensembl Gene Model \| MGI Sequence Detail	3327	C57BL/6J	± kb
	transcript	ENSMUST00000135748	Ensembl \| MGI Sequence Detail	788	Not Applicable
	polypeptide	ENSMUSP00000138550	Ensembl \| MGI Sequence Detail	147	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000012799 phospholipase A2, membrane associated

(term hierarchy)
EC

3.1.1.4
InterPro Domains

IPR001211 Phospholipase A2

IPR033112 Phospholipase A2, aspartic acid active site

IPR016090 Phospholipase A2 domain

IPR036444 Phospholipase A2 domain superfamily

IPR033113 Phospholipase A2, histidine active site

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All nucleic 34

Genomic 6

cDNA 25

Primer pair 3

Microarray probesets 2

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MGD-MRK-12352, MGD-MRK-26080, MGI:97049

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Summaries

All 128

Developmental Gene Expression 6

Gene Ontology 21

Phenotypes 46
Earliest

J:1879 Moser AR, et al., The Min (multiple intestinal neoplasia) mutation: its effect on gut epithelial cell differentiation and interaction with a modifier system. J Cell Biol. 1992 Mar;116(6):1517-26
Latest

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

TSS for Pla2g2a:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr39878	Chr4:138559085-138559091 (+)	-83 bp
Tssr39879	Chr4:138559168-138559179 (+)	3 bp
Tssr39880	Chr4:138559967-138559994 (+)	810 bp
Tssr39881	Chr4:138560192-138560207 (+)	1,029 bp
Tssr39882	Chr4:138560237-138560246 (+)	1,071 bp
Tssr39883	Chr4:138560248-138560259 (+)	1,083 bp
Tssr39884	Chr4:138560265-138560280 (+)	1,102 bp
Tssr39885	Chr4:138560312-138560321 (+)	1,146 bp
Tssr39886	Chr4:138560575-138560588 (+)	1,411 bp
Tssr1352	Chr4:138562206-138562215 (+)	3,040 bp
Tssr39887	Chr4:138562231-138562249 (+)	3,069 bp
Tssr39888	Chr4:138562379-138562384 (+)	3,211 bp

Pla2g2a is Candidate Gene for:

QTL	Genetic Location*	Genome Location (GRCm39)	Reference	QTL Note
Cdcs9	Chr4, 75.67 cM	Chr4:142230872-142230960	J:109420	Microarray analysis was used to identify candidate genes for colitis susceptibility QTLs. Messenger RNA was analyzed for expression differences between colitis susceptible inbred strain C3H/HeJBir-Il10 and colitis resistant inbred strain C57BL/6J-Il10. Capn3 (67.2 cM) on mouse Chromosome 2 is upregulated 1.5- to 2-fold in C3H/HeJBir-Il10 animals. This candidate gene maps to the Cdcs3 (cytokine deficiency colitis susceptibility 3) interval centered near 65 cM. Gbp1 (67.4 cM) on mouse Chromosome 3 is upregulated over 15-fold in C3H/HeJBir-Il10 animals. This candidate gene is known to be polymorphic between C3H/HeJBir and C57BL/6J and exhibits expression differences in these parental wild type strains. Gbp1 maps to the Cdcs1 (cytokine deficiency colitis susceptibility 1) interval centered near 62 cM. Adh1 at 71.2 cM and Bglap2 at 42.6 cM also map to the same QTL interval. Adh1 is upregulated 1.5- to 2-fold, and Blgap2 is upregulated 2- to 5-fold, in C3H/HeJBir-Il10animals. Pla2g2a (68 cM) on mouse Chromosome 4 is upregulated over 15-fold in C3H/HeJBir-Il10 animals. This candidate gene is known to be polymorphic between C3H/HeJBir and C57BL/6J and exhibits expression differences in these parental wild typestrains. Pla2g2a maps to the Cdcs9 (cytokine deficiency colitis susceptibility 9) interval centered near 71 cM. Moreover, C57BL/6J animals are known to carry the frameshift mutation Pla2g2a resulting in multiple intestinal neoplasia. The human ortholog PLA2G2A maps near a irritable bowel disorder (IBD) susceptibility locus named IBD7. Gnb1 (79.4 cM) also maps to the Cdcs9 QTL interval and is upregulated 2- to 5-fold in C57BL/6J-Il10 animals. Errfi1 (formerly 1300002F13Rik) and Tceb3 also map to the Cdcs9 interval and are upregulated 1.5- to 2-fold in C57BL/6J-Il10 animals. Areg (51 cM) on mouse Chromosome 5 maps near the Cdcs10 QTL interval centered around 45 cM. This candidate gene is upregulated 1.5- to 2-fold in C57BL/6J-Il10 animals. Mtmr7 maps to mouse Chromosome 8 near the Cdcs4 interval centered around 21 cM. This candidate gene is upregulated over 15-fold in C57BL/6J-Il10 animals. Cd14 (31 cM) on mouse Chromosome 18 is upregulated 5- to 15-fold in C3H/HeJBir-Il10 animals. CD14 also exhibits expression differences in parental wild type strains C3H/HeJBir and C57BL/6J. This candidate gene maps to the Cdcs6 (cytokine deficiency colitis susceptibility 6) interval centered near 41 cM. The human ortholog CD14 maps near a human irritable bowel disorder (IBD) susceptibility locus named IBD5. Glo1 (16 cM) and Ly6g6c on mouse Chromosome 17 are upregulated 2- to 5-fold in C57BL/6J-Il10 animals. This candidate gene maps to the Cdcs5 (cytokine deficiency colitis susceptibility 5) interval centered near 19 cM. Hspa1a (18.9 cM) and Hspa1b (18.9 cM) also map to Cdcs5 and are upregulated 1.5- to 2-fold in C57BL/6J-Il10 animals.

*cM position of peak correlated region/marker

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)
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