Capn1 MGI Mouse Gene Detail - MGI:88263

Symbol

Capn1
Name

calpain 1
Synonyms

Capa-1, Capa1, mu-calpin

Feature Type

protein coding gene
IDs

MGI:88263
NCBI Gene: 12333
Alliance

gene page
Transcription Start Sites

10 TSS

Sequence Map

Chr19:6038573-6065855 bp, - strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 19, 4.34 cM
Mapping Data

4 experiments

SNPs within 2kb

890 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_88263	protein coding gene	Chr19:6038573-6065927 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0024736	protein coding gene	Chr19:3010518-3039727 (-)
A/J	MGP_AJ_G0024702	protein coding gene	Chr19:2842350-2869696 (-)
AKR/J	MGP_AKRJ_G0024675	protein coding gene	Chr19:2924279-2953903 (-)
BALB/cJ	MGP_BALBcJ_G0024702	protein coding gene	Chr19:2839091-2866846 (-)
C3H/HeJ	MGP_C3HHeJ_G0024470	protein coding gene	Chr19:2944674-2976107 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0025149	protein coding gene	Chr19:3073638-3102330 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0022582	protein coding gene	Chr19:2771094-2797446 (-)
CAST/EiJ	MGP_CASTEiJ_G0023942	protein coding gene	Chr19:2952912-2982558 (-)
CBA/J	MGP_CBAJ_G0024442	protein coding gene	Chr19:3217921-3246577 (-)
DBA/2J	MGP_DBA2J_G0024569	protein coding gene	Chr19:2828940-2855808 (-)
FVB/NJ	MGP_FVBNJ_G0024535	protein coding gene	Chr19:2838615-2867636 (-)
LP/J	MGP_LPJ_G0024655	protein coding gene	Chr19:2983737-3011395 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0024565	protein coding gene	Chr19:3029644-3065753 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0025197	protein coding gene	Chr19:2949876-2985061 (-)
PWK/PhJ	MGP_PWKPhJ_G0023688	protein coding gene	Chr19:2853946-2883892 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0023493	protein coding gene	Chr19:2920354-2947323 (-)
WSB/EiJ	MGP_WSBEiJ_G0024004	protein coding gene	Chr19:2958181-2992723 (-)

Human Ortholog

CAPN1, calpain 1

Vertebrate Orthologs

6

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

CAPN1, calpain 1
Synonyms

CANP, CANP1, CANPL1, muCANP, muCL, SPG76
Links

HGNC:1476

NCBI Gene ID: 823

neXtProt AC: NX_P07384

UniProt: P07384
Chr Location

11q13.1; chr11:65180566-65212006 (+) GRCh38

MGI Vertebrate Homology

Capn1 stringent orthology
1 human;1 mouse;1 rat;4 zebrafish
HCOP

vertebrate homology predictions: CAPN1
Gene Tree

Capn1

Diseases

1 with human CAPN1 associations

				Human Disease	Mouse Models
				hereditary spastic paraplegia 76 IDs hereditary spastic paraplegia 76 DOID:0110821 OMIM:616907

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

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Phenotype Summary

11 phenotypes from 4 alleles in 4 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

10
Endonuclease-mediated

2
Gene trapped

4
Targeted

3
Transgenic

1
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

33 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Animals homozygous for a mutation of this gene exhibit decreased platelet aggregation and defective clot retraction although bleeding times remain similar to wild-type.

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All GO Annotations

47
GO References

12

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	non-membrane-bounded 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

759
Tissues

33
cDNA Data

62
Literature Summary

8

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase capn1

ZFIN capn1, capn1a, capn1b

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All Sequences

67
RefSeq

6
UniProt

10
CCDS

CCDS37893.1

Ensembl

ENSMUSG00000024942 (Evidence)
NCBI Gene

12333

			Length	Strain/Species	Flank
genomic	12333	NCBI Gene Model \| MGI Sequence Detail	27283	C57BL/6J	± kb
transcript	NM_007600	RefSeq \| MGI Sequence Detail	3046	C57BL/6
polypeptide	O35350	UniProt \| EBI \| MGI Sequence Detail	713	Not Applicable

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UniProt

10 Sequences
Protein Ontology

PR:000005009 calpain-1 catalytic subunit

(term hierarchy)
EC

3.4.22.52
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 65

Genomic 1

cDNA 62

Primer pair 2

Microarray probesets 4

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MGD-MRK-1750, MGD-MRK-1754

Summaries

All 137

Developmental Gene Expression 8

Gene Ontology 12

Phenotypes 34
Earliest

J:10756 Moens PB, et al., In situ DNA sequence mapping with surface-spread mouse pachytene chromosomes. Cytogenet Cell Genet. 1990;53(4):219-20
Latest

J:348877 Wang LH, et al., Calpain-2 Mediates MBNL2 Degradation and a Developmental RNA Processing Program in Neurodegeneration. J Neurosci. 2022 Jun 22;42(25):5102-5114

TSS for Capn1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr157815	Chr19:6065872-6065901 (-)	-32 bp
Tssr157814	Chr19:6065799-6065860 (-)	25 bp
Tssr157813	Chr19:6065544-6065558 (-)	304 bp
Tssr157812	Chr19:6065519-6065535 (-)	328 bp
Tssr157811	Chr19:6065182-6065228 (-)	650 bp
Tssr5421	Chr19:6042117-6042135 (-)	23,729 bp
Tssr157810	Chr19:6041608-6041657 (-)	24,222 bp
Tssr157809	Chr19:6039377-6039390 (-)	26,471 bp
Tssr157808	Chr19:6039300-6039341 (-)	26,534 bp
Tssr157807	Chr19:6039196-6039215 (-)	26,649 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 10/29/2024 MGI 6.24