Capn9 MGI Mouse Gene Detail - MGI:1920897

Symbol

Capn9
Name

calpain 9
Synonyms

GC36, nCL-4

Feature Type

protein coding gene
IDs

MGI:1920897
NCBI Gene: 73647
Alliance

gene page
Transcription Start Sites

5 TSS

Sequence Map

Chr8:125302850-125345470 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 8, 72.81 cM, cytoband E2
Mapping Data

2 experiments

SNPs within 2kb

1422 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1920897	protein coding gene	Chr8:125301361-125345470 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0034273	protein coding gene	Chr8:128266970-128312944 (+)
A/J	MGP_AJ_G0034253	protein coding gene	Chr8:122959640-123000734 (+)
AKR/J	MGP_AKRJ_G0034180	protein coding gene	Chr8:126496802-126538283 (+)
BALB/cJ	MGP_BALBcJ_G0034246	protein coding gene	Chr8:123145120-123186672 (+)
C3H/HeJ	MGP_C3HHeJ_G0033957	protein coding gene	Chr8:127144908-127183645 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0034766	protein coding gene	Chr8:132554870-132594571 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0031707	protein coding gene	Chr8:115728451-115767030 (+)
CAST/EiJ	MGP_CASTEiJ_G0033284	protein coding gene	Chr8:127260860-127305466 (+)
CBA/J	MGP_CBAJ_G0033930	protein coding gene	Chr8:137421266-137465751 (+)
DBA/2J	MGP_DBA2J_G0034086	protein coding gene	Chr8:122115971-122158448 (+)
FVB/NJ	MGP_FVBNJ_G0034030	protein coding gene	Chr8:121288094-121325887 (+)
LP/J	MGP_LPJ_G0034175	protein coding gene	Chr8:128421402-128472193 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0034077	protein coding gene	Chr8:139501473-139545396 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0034785	protein coding gene	Chr8:126729654-126768545 (+)
PWK/PhJ	MGP_PWKPhJ_G0032986	protein coding gene	Chr8:121879840-121919331 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0032825	protein coding gene	Chr8:125376887-125416513 (+)
WSB/EiJ	MGP_WSBEiJ_G0033401	protein coding gene	Chr8:127453440-127500169 (+)

Human Ortholog

CAPN9, calpain 9

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

CAPN9, calpain 9
Synonyms

GC36, nCL-4
Links

HGNC:1486

NCBI Gene ID: 10753

neXtProt AC: NX_O14815

UniProt: O14815
Chr Location

1q42.2; chr1:230747384-230802003 (+) GRCh38

MGI Vertebrate Homology

Capn9 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: CAPN9
Gene Tree

Capn9

Diseases

1 with human CAPN9 associations

				Human Disease	Mouse Models
				stomach cancer IDs stomach cancer DOID:10534 DOID:10539 DOID:10542 DOID:10543 DOID:4713 ICD10CM:C16 ICD10CM:C16.2 ICD10CM:C16.5 ICD10CM:C16.6 ICD9CM:151 ICD9CM:151.4 ICD9CM:151.5 ICD9CM:151.6 ICD9CM:151.9 MESH:D013274 NCI:C3387 NCI:C9331 OMIM:613659 UMLS_CUI:C0024623 UMLS_CUI:C0038356 UMLS_CUI:C0153421 UMLS_CUI:C0153422 UMLS_CUI:C0153423

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

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Phenotype Summary

2 phenotypes from 1 allele in 1 genetic background
9 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

5
Endonuclease-mediated

2
Gene trapped

1
Targeted

2
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

42 strains or lines available

Mice homozygous for a knock-out allele exhibit increased sensitivity to ethanol-induced gastric mucosa injury.

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All GO Annotations

7
GO References

4

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

707
Tissues

1
cDNA Data

7
Literature Summary

1

Images

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

GEISHA CAPN9

Xenbase capn9

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All Sequences

39
RefSeq

6
UniProt

3
CCDS

CCDS40514.1

Ensembl

ENSMUSG00000031981 (Evidence)
NCBI Gene

73647

			Length	Strain/Species	Flank
genomic	ENSMUSG00000031981	Ensembl Gene Model \| MGI Sequence Detail	42621	C57BL/6J	± kb
transcript	ENSMUST00000093033	Ensembl \| MGI Sequence Detail	2330	Not Applicable
polypeptide	ENSMUSP00000090717	Ensembl \| MGI Sequence Detail	690	Not Applicable

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UniProt

3 Sequences
Protein Ontology

PR:000005021 calpain-9

(term hierarchy)
EC

3.4.22.-
InterPro Domains

IPR050420 Calpain

IPR036213 Calpain large subunit, domain III superfamily

IPR033883 Calpain subdomain III

IPR000169 Cysteine peptidase, cysteine active site

IPR018247 EF-Hand 1, calcium-binding site

IPR002048 EF-hand domain

IPR011992 EF-hand domain pair

IPR038765 Papain-like cysteine peptidase superfamily

IPR001300 Peptidase C2, calpain, catalytic domain

IPR022683 Peptidase C2, calpain, domain III

IPR022684 Peptidase C2, calpain family

IPR022682 Peptidase C2, calpain, large subunit, domain III

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All nucleic 7

cDNA 7

Microarray probesets 3

Summaries

All 33

Developmental Gene Expression 1

Gene Ontology 4

Phenotypes 9
Earliest

J:73503 Lee HJ, et al., Molecular cloning and characterization of a novel tissue-specific calpain predominantly expressed in the digestive tract. Biol Chem. 1998 Feb;379(2):175-83
Latest

J:277692 Kim DH, et al., Calpain 9 as a therapeutic target in TGFbeta-induced mesenchymal transition and fibrosis. Sci Transl Med. 2019 Jul 17;11(501)

TSS for Capn9:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr80031	Chr8:125302814-125302829 (+)	-28 bp
Tssr80032	Chr8:125302844-125302865 (+)	5 bp
Tssr2732	Chr8:125312066-125312068 (+)	9,217 bp
Tssr80033	Chr8:125340920-125340958 (+)	38,089 bp
Tssr2733	Chr8:125341298-125341320 (+)	38,459 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