Capns2 (calpain, small subunit 2)

Gene: Capns2 (calpain, small subunit 2) Rattus norvegicus

Analyze

Symbol:

Capns2

Name:

calpain, small subunit 2

RGD ID:

1583620

Description:

Predicted to enable calcium-dependent cysteine-type endopeptidase activity. Orthologous to human CAPNS2 (calpain small subunit 2); INTERACTS WITH 17beta-estradiol 3-benzoate; 6-propyl-2-thiouracil; acrylamide.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

calpain small subunit 2; LOC679870; similar to Calpain small subunit 2 (CSS2) (Calcium-dependent protease small subunit 2)

RGD Orthologs

Alliance Genes

More Info

more info ...

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	19	30,277,324 - 30,278,266 (-)	NCBI		GRCr8
mRatBN7.2	19	14,104,334 - 14,105,276 (-)	NCBI	mRatBN7.2	mRatBN7.2
UTH_Rnor_SHR_Utx	19	15,800,101 - 15,801,043 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	19	20,994,873 - 20,995,815 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	19	23,940,465 - 23,941,407 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	19	15,485,258 - 15,486,200 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	19	26,581,115 - 26,603,016 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	19	15,193,882 - 15,194,824 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	19	14,027,865 - 14,028,807 (-)	NCBI		Celera
Cytogenetic Map	19	p11	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

17beta-estradiol 3-benzoate (EXP)

2-hydroxypropanoic acid (ISO)

3-isobutyl-1-methyl-7H-xanthine (ISO)

6-propyl-2-thiouracil (EXP)

acrylamide (EXP)

all-trans-retinoic acid (ISO)

amitrole (EXP)

Benzo[k]fluoranthene (ISO)

bis(2-chloroethyl) sulfide (ISO)

bisphenol A (EXP)

bisphenol F (ISO)

cadmium dichloride (ISO)

copper atom (EXP)

copper(0) (EXP)

dexamethasone (ISO)

disodium selenite (ISO)

furan (EXP)

hydrogen peroxide (ISO)

hydroquinone O-beta-D-glucopyranoside (ISO)

indometacin (ISO)

methimazole (EXP)

ozone (ISO)

phenobarbital (EXP)

rac-lactic acid (ISO)

sodium dodecyl sulfate (ISO)

sulfadimethoxine (EXP)

titanium dioxide (ISO)

triptonide (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Molecular Function

calcium-dependent cysteine-type endopeptidase activity (ISO)

protein binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	GOA pipeline	RGD automated data pipeline
2.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:17646163

Genomics

Comparative Map Data

Capns2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	19	30,277,324 - 30,278,266 (-)	NCBI		GRCr8
mRatBN7.2	19	14,104,334 - 14,105,276 (-)	NCBI	mRatBN7.2	mRatBN7.2
UTH_Rnor_SHR_Utx	19	15,800,101 - 15,801,043 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	19	20,994,873 - 20,995,815 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	19	23,940,465 - 23,941,407 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	19	15,485,258 - 15,486,200 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	19	26,581,115 - 26,603,016 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	19	15,193,882 - 15,194,824 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	19	14,027,865 - 14,028,807 (-)	NCBI		Celera
Cytogenetic Map	19	p11	NCBI

CAPNS2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	16	55,566,684 - 55,567,687 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	16	55,566,684 - 55,567,687 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	16	55,600,596 - 55,601,599 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	16	54,158,085 - 54,159,093 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	16	54,158,084 - 54,159,093	NCBI
Celera	16	40,114,807 - 40,115,815 (+)	NCBI		Celera
Cytogenetic Map	16	q12.2	NCBI
HuRef	16	41,487,974 - 41,488,982 (+)	NCBI		HuRef
CHM1_1	16	57,007,840 - 57,008,848 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	16	61,364,815 - 61,365,818 (+)	NCBI		T2T-CHM13v2.0

Capns2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	8	93,628,023 - 93,629,037 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	8	93,628,035 - 93,629,039 (+)	Ensembl		GRCm39 Ensembl
GRCm38	8	92,901,395 - 92,902,409 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	8	92,901,407 - 92,902,411 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	8	95,425,294 - 95,426,308 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	8	95,790,532 - 95,791,537 (+)	NCBI		MGSCv36	mm8
Celera	8	97,231,130 - 97,232,142 (+)	NCBI		Celera
Cytogenetic Map	8	C5	NCBI
cM Map	8	44.99	NCBI

Capns2
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0	NW_004955433	13,106,820 - 13,107,865 (+)	NCBI	ChiLan1.0	ChiLan1.0

CAPNS2
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	18	64,984,325 - 64,998,220 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	16	70,913,091 - 70,915,074 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	16	35,799,223 - 35,800,347 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	16	54,904,681 - 54,905,690 (+)	NCBI	panpan1.1	PanPan1.1	panPan2

CAPNS2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	2	60,417,970 - 60,426,891 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
Dog10K_Boxer_Tasha	2	57,051,507 - 57,059,958 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	2	60,963,456 - 60,971,913 (-)	NCBI		ROS_Cfam_1.0
UMICH_Zoey_3.1	2	57,790,368 - 57,798,813 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	2	58,814,598 - 58,823,049 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	2	59,692,865 - 59,701,316 (-)	NCBI		UU_Cfam_GSD_1.0

Capns2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024409349	51,715,231 - 51,726,394 (-)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936475	7,872,423 - 7,874,086 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CAPNS2
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	5	41,351,760 - 41,353,261 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666047	34,993,859 - 34,995,692 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Capns2
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624757	1,395,102 - 1,396,406 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Capns2
2 total Variants

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
7411590	Foco7	Food consumption QTL 7	6.8	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	19	1	24688055	Rat
10054132	Srcrt9	Stress Responsive Cort QTL 9	2.87	0.0017	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	19	1	27355345	Rat
631678	Cm9	Cardiac mass QTL 9	4.27	0.0001	aorta mass (VT:0002845)	aorta weight (CMO:0000076)	19	1	28982497	Rat
631681	Cm12	Cardiac mass QTL 12	3.33	0.00053	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	19	1	28982497	Rat
1549847	Bss8	Bone structure and strength QTL 8	4		lumbar vertebra strength trait (VT:0010574)	vertebra ultimate force (CMO:0001678)	19	1	31963836	Rat
9590298	Uminl5	Urine mineral level QTL 5	3.59	0.001	urine mineral amount (VT:0015086)	urine electrolyte level (CMO:0000593)	19	1	36824771	Rat
8552935	Pigfal10	Plasma insulin-like growth factor 1 level QTL 10	5.7		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	19	1	36824771	Rat
9590250	Scort11	Serum corticosterone level QTL 11	23.45	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	19	1	36824771	Rat
9590090	Insglur8	Insulin/glucose ratio QTL 8	10.81	0.001	blood insulin amount (VT:0001560)	calculated plasma insulin level (CMO:0002170)	19	1	36824771	Rat
9589102	Slep13	Serum leptin concentration QTL 13	4.63	0.001	blood leptin amount (VT:0005667)	plasma leptin level (CMO:0000781)	19	569374	45569374	Rat
8694186	Bw152	Body weight QTL 152	3.34	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	19	569374	45569374	Rat
7247442	Uae39	Urinary albumin excretion QTL 39			urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	19	2187927	46708701	Rat
724566	Uae12	Urinary albumin excretion QTL 12	5		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	19	2187927	56457239	Rat
61447	Tcas1	Tongue tumor susceptibility QTL 1	6.08		tongue integrity trait (VT:0010553)	squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)	19	2316121	47316121	Rat
2317848	Alcrsp21	Alcohol response QTL 21	1.899999976158142	0.05	response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	19	3204777	48204777	Rat
1331737	Uae29	Urinary albumin excretion QTL 29	5.5		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	19	4096155	55283277	Rat
724518	Uae19	Urinary albumin excretion QTL 19	5.5		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	19	7457249	42983518	Rat
724565	Tcas5	Tongue tumor susceptibility QTL 5	10.04		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	19	9977753	39654489	Rat
631840	Niddm38	Non-insulin dependent diabetes mellitus QTL 38	3.86		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	19	10323180	23069265	Rat
61423	Cia14	Collagen induced arthritis QTL 14	3		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	19	10827970	43544039	Rat
61407	Scl12	Serum cholesterol level QTL 12		0.001	blood HDL cholesterol amount (VT:0000184)	serum high density lipoprotein cholesterol level (CMO:0000361)	19	13926401	30303727	Rat

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001109380	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH474037	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000019	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

NM_001109380 ⟹ NP_001102850

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	19	30,277,324 - 30,278,266 (-)	NCBI
mRatBN7.2	19	14,104,334 - 14,105,276 (-)	NCBI
Rnor_6.0	19	15,485,258 - 15,486,200 (-)	NCBI
Rnor_5.0	19	26,581,115 - 26,603,016 (-)	NCBI
RGSC_v3.4	19	15,193,882 - 15,194,824 (-)	RGD
Celera	19	14,027,865 - 14,028,807 (-)	RGD

Sequence:

show sequence

CATCTCCCGGATTTCAGCAGCCTCCACACCCGCTCCATAACCCACAAGCATGTTCCTCGCAAAG
GCCATCCTGGAAGGTGCAGATCGGGGTCTCGGAGGGGCTCTTGGAGGCCTTCTTGGAGGAGGTG
GTCAGGCAGGAGCAGGTAGGGGCAACATCGGAGGGATCATCGGAGGAATTGTCAATTTTATCAG
TGAGGCCGCCGCAGCTCAGTACACCCCAGAGCCGCCTCCCCCACAGCGGCATTTCACTGTTGTG
GAGGCCTCAGAAAGTGACGAAGTCAGGCGTTTCCGGCAGCAATTTACACAGCTGGCTGGACCCG
ACATGGAGGTGGGTGCCGCCGACCTGATGAACATTCTCAACAAGGTCCTCTCTAAGCACAAGGA
GCTGAAGACGGACGGTTTCAGCCTTGACACCTGCAGGAGCATCGTGTCTGTCATGGACAGTGAC
ACGACTGGGAAACTGGGCTTTGAGGAATTTAAGTACCTGTGGAACAACATCAAGAAATGGCAGT
GTGTTTTTAAGCAGTATGACAGCGACCATTCTGGCTTCCTCAGGAGCTCCCAGCTACACGGGGC
CATGCAGGCAGCAGGCTTCCAGCTAAATGAGCAGCTTTACCTAATGATTGTCCGTCGGTATGCT
GACGAAGACGGCAGCATGGACTTTAACAACTTTATCAGCTGCCTGGTTCGCCTGGATGCCATGT
TTCGAGCTTTCAAGACTCTGGATCGTGATAGGGATGGGCTGATTCGGGTTTCCATCAGGGAATG
GCTGCAGCTGACCATGTATTCCTGAAATGGAGACAGAGAGGTAGAGACTCTCCCTGGAGGACAG
GGCTGCAGAAAGCCTTGTCATATGCACCACAGCTCTTATCTGACCCTGGTGGGCTCTTTTATAA
TGCTGCATATTATATTCCTGATTGTAGTCTACCCTTCACTGATTAAT

hide sequence

Protein Sequences


Protein RefSeqs	NP_001102850	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL87570	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_001102850 ⟸ NM_001109380

- UniProtKB:

A6KD57 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MFLAKAILEGADRGLGGALGGLLGGGGQAGAGRGNIGGIIGGIVNFISEAAAAQYTPEPPPPQR
HFTVVEASESDEVRRFRQQFTQLAGPDMEVGAADLMNILNKVLSKHKELKTDGFSLDTCRSIVS
VMDSDTTGKLGFEEFKYLWNNIKKWQCVFKQYDSDHSGFLRSSQLHGAMQAAGFQLNEQLYLMI
VRRYADEDGSMDFNNFISCLVRLDAMFRAFKTLDRDRDGLIRVSIREWLQLTMYS

hide sequence

Protein Domains

EF-hand

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1583620	AgrOrtholog
BioCyc Gene	G2FUF-6401	BioCyc
Gene3D-CATH	EF-hand	UniProtKB/TrEMBL
InterPro	EF-hand-dom_pair	UniProtKB/TrEMBL
	EF_hand_dom	UniProtKB/TrEMBL
KEGG Report	rno:679870	UniProtKB/TrEMBL
NCBI Gene	679870	ENTREZGENE
PANTHER	CALPAIN SMALL SUBUNIT 2	UniProtKB/TrEMBL
	CALPAIN, SMALL SUBUNIT 1 A-RELATED	UniProtKB/TrEMBL
Pfam	EF-hand_8	UniProtKB/TrEMBL
PhenoGen	Capns2	PhenoGen
PROSITE	EF_HAND_2	UniProtKB/TrEMBL
Superfamily-SCOP	EF-hand	UniProtKB/TrEMBL
UniProt	A6KD57	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-03-05	Capns2	calpain, small subunit 2	LOC679870	similar to Calpain small subunit 2 (CSS2) (Calcium-dependent protease small subunit 2)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-01-09	LOC679870	similar to Calpain small subunit 2 (CSS2) (Calcium-dependent protease small subunit 2)	LOC682500	similar to Calpain small subunit 2 (CSS2) (Calcium-dependent protease small subunit 2)	Data merged from RGD:1597974	1643240	APPROVED
2006-11-20	LOC682500	similar to Calpain small subunit 2 (CSS2) (Calcium-dependent protease small subunit 2)			Symbol and Name status set to provisional	70820	PROVISIONAL
2006-11-19	LOC679870	similar to Calpain small subunit 2 (CSS2) (Calcium-dependent protease small subunit 2)			Symbol and Name status set to provisional	70820	PROVISIONAL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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