Gca MGI Mouse Gene Detail - MGI:1918521

Symbol

Gca
Name

grancalcin
Synonyms

5133401E04Rik

Feature Type

protein coding gene
IDs

MGI:1918521
NCBI Gene: 227960
Alliance

gene page
Transcription Start Sites

6 TSS

Sequence Map

Chr2:62494671-62524453 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 2, 36.47 cM
Mapping Data

2 experiments

SNPs within 2kb

864 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1918521	protein coding gene	Chr2:62494629-62524453 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0025773	protein coding gene	Chr2:62364856-62396861 (+)
A/J	MGP_AJ_G0025749	protein coding gene	Chr2:59973886-60003483 (+)
AKR/J	MGP_AKRJ_G0025719	protein coding gene	Chr2:61576493-61606884 (+)
BALB/cJ	MGP_BALBcJ_G0025744	protein coding gene	Chr2:60089217-60118509 (+)
C3H/HeJ	MGP_C3HHeJ_G0025505	protein coding gene	Chr2:61686076-61719279 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0026191	protein coding gene	Chr2:64199337-64230376 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0023595	protein coding gene	Chr2:57488018-57518257 (+)
CAST/EiJ	MGP_CASTEiJ_G0024969	protein coding gene	Chr2:61765391-61798550 (+)
CBA/J	MGP_CBAJ_G0025485	protein coding gene	Chr2:66629402-66663934 (+)
DBA/2J	MGP_DBA2J_G0025616	protein coding gene	Chr2:59553550-59586068 (+)
FVB/NJ	MGP_FVBNJ_G0025578	protein coding gene	Chr2:59074269-59105568 (+)
LP/J	MGP_LPJ_G0025704	protein coding gene	Chr2:62191378-62221847 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0025609	protein coding gene	Chr2:68321073-68355287 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0026248	protein coding gene	Chr2:61648912-61681465 (+)
PWK/PhJ	MGP_PWKPhJ_G0024710	protein coding gene	Chr2:59421505-59457894 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0024517	protein coding gene	Chr2:61795509-61828253 (+)
WSB/EiJ	MGP_WSBEiJ_G0025037	protein coding gene	Chr2:61973392-62005446 (+)

Human Ortholog

GCA, grancalcin

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

GCA, grancalcin
Synonyms

GCL
Links

HGNC:15990

NCBI Gene ID: 25801

neXtProt AC: NX_P28676

UniProt: P28676
Chr Location

2q24.2; chr2:162318763-162375396 (+) GRCh38

MGI Vertebrate Homology

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

vertebrate homology predictions: GCA
Gene Tree

Gca

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Phenotype Summary

1 phenotype from 1 allele in 1 genetic background
13 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

11
Chemically induced (other)

1
Endonuclease-mediated

6
Gene trapped

3
Targeted

1
Genomic Mutations

1 involving Gca
Find Mice (IMSR)

17 strains or lines available

Mice homozygous for disruptions in this gene are essentially normal. However they do demonstrate an increased resistance to endotoxic shock.

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All GO Annotations

11
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

727
Tissues

2
cDNA Data

15
Literature Summary

2

Images

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase gca

ZFIN gca

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All Sequences

43
RefSeq

2
UniProt

1
CCDS

CCDS16069.1

Ensembl

ENSMUSG00000026893 (Evidence)
NCBI Gene

227960

			Length	Strain/Species	Flank
genomic	227960	NCBI Gene Model \| MGI Sequence Detail	29783	C57BL/6J	± kb
transcript	NM_145523	RefSeq \| MGI Sequence Detail	3288	C57BL/6
polypeptide	Q8VC88	UniProt \| EBI \| MGI Sequence Detail	220	Not Applicable

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UniProt

1 Sequence
Protein Ontology

PR:000007884 grancalcin

(term hierarchy)
InterPro Domains

IPR018247 EF-Hand 1, calcium-binding site

IPR002048 EF-hand domain

IPR011992 EF-hand domain pair

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All nucleic 15

cDNA 15

Microarray probesets 5

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MGI:2139004

Summaries

All 39

Developmental Gene Expression 2

Gene Ontology 5

Phenotypes 13
Earliest

J:93290 Araki K, et al., Exchangeable gene trap using the Cre/mutated lox system. Cell Mol Biol (Noisy-Le-Grand). 1999 Jul;45(5):737-50
Latest

J:351149 Su T, et al., Myeloid-derived grancalcin instigates obesity-induced insulin resistance and metabolic inflammation in male mice. Nat Commun. 2024 Jan 2;15(1):97

TSS for Gca:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr17965	Chr2:62494623-62494644 (+)	-37 bp
Tssr17966	Chr2:62494650-62494655 (+)	-18 bp
Tssr17967	Chr2:62494663-62494679 (+)	0 bp
Tssr17968	Chr2:62516481-62516512 (+)	21,826 bp
Tssr17969	Chr2:62522957-62522977 (+)	28,296 bp
Tssr17970	Chr2:62523068-62523110 (+)	28,418 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)
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