Calb2 (calbindin 2) - Rat Genome Database

Name: Calb2
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Calb2 (calbindin 2) Rattus norvegicus

Analyze

Symbol:

Calb2

Name:

calbindin 2

RGD ID:

620981

Description:

Enables calcium ion binding activity. Predicted to be involved in regulation of long-term synaptic potentiation and regulation of presynaptic cytosolic calcium ion concentration. Located in cuticular plate and stereocilium. Is active in synapse. Orthologous to human CALB2 (calbindin 2); PARTICIPATES IN calcium/calcium-mediated signaling pathway; INTERACTS WITH (R)-lipoic acid; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

calretinin; CR; MGC105356

RGD Orthologs

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	CALB2 (calbindin 2)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Calb2 (calbindin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Calb2 (calbindin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CALB2 (calbindin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CALB2 (calbindin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Calb2 (calbindin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CALB2 (calbindin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	CALB2 (calbindin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Calb2 (calbindin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	CALB2 (calbindin 2)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Calb2 (calbindin 2)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	calb2a (calbindin 2a)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	calb2b (calbindin 2b)	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Cbp53E	Alliance	DIOPT (InParanoid\|OMA\|OrthoInspector\|PANTHER\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	calb2	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Candidate Gene For:

Eau8

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
mRatBN7.2	19	38,114,435 - 38,141,438 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	19	38,114,424 - 38,141,438 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	19	44,920,886 - 44,947,919 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	19	45,574,230 - 45,601,269 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	19	47,883,801 - 47,910,840 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	19	41,482,743 - 41,509,617 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	19	41,482,728 - 41,509,658 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	19	52,310,641 - 52,337,700 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	19	40,023,072 - 40,051,150 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	19	40,027,952 - 40,056,031 (-)	NCBI
Celera	19	37,512,226 - 37,538,062 (-)	NCBI		Celera
Cytogenetic Map	19	q12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

amyotrophic lateral sclerosis type 1 (ISO)

autosomal dominant dyskeratosis congenita 6 (ISO)

Endometrial Neoplasms (ISO)

genetic disease (ISO)

malignant mesothelioma (ISO)

Peritoneal Neoplasms (ISO)

uveitis (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(R)-lipoic acid (EXP)

1,2-dimethylhydrazine (ISO)

17beta-estradiol (ISO)

2,2',4,4',5,5'-hexachlorobiphenyl (ISO)

2,2',5,5'-tetrachlorobiphenyl (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

2,3,7,8-Tetrachlorodibenzofuran (EXP)

2-hydroxypropanoic acid (ISO)

3-chloropropane-1,2-diol (EXP)

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

3-methylcholanthrene (ISO)

5-fluorouracil (ISO)

6-propyl-2-thiouracil (EXP)

aflatoxin B1 (ISO)

ammonium chloride (EXP)

amphetamine (ISO)

arsane (ISO)

arsenic atom (ISO)

arsenous acid (ISO)

asbestos (ISO)

benzo[a]pyrene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

Bisphenol B (ISO)

bisphenol F (ISO)

Brodifacoum (EXP)

butanal (ISO)

Butylparaben (ISO)

C60 fullerene (EXP)

cadmium atom (ISO)

carmustine (ISO)

cefaloridine (EXP)

CGP 52608 (ISO)

chlordecone (ISO)

copper(II) sulfate (ISO)

crocidolite asbestos (ISO)

Cuprizon (EXP)

cyclosporin A (ISO)

cytarabine (ISO)

DDE (EXP)

DDT (EXP)

dexamethasone (ISO)

diarsenic trioxide (ISO)

diethylstilbestrol (EXP)

dorsomorphin (ISO)

doxorubicin (ISO)

ethanol (EXP,ISO)

flusilazole (EXP)

flutamide (EXP)

hydroquinone (ISO)

indometacin (ISO)

ketamine (EXP)

ketoconazole (EXP)

L-ascorbic acid (EXP)

lead diacetate (EXP)

lead(0) (EXP,ISO)

Licochalcone B (ISO)

lipoic acid (EXP)

maneb (ISO)

methamphetamine (EXP)

methylisothiazolinone (ISO)

methylmercury chloride (ISO)

methylparaben (ISO)

N-Nitrosopyrrolidine (ISO)

nickel atom (ISO)

O-methyleugenol (ISO)

oxaliplatin (ISO)

ozone (ISO)

panobinostat (ISO)

paraquat (ISO)

PCB138 (EXP,ISO)

pentanal (ISO)

picrotoxin (EXP)

pirinixic acid (EXP,ISO)

potassium dichromate (ISO)

rac-lactic acid (ISO)

raloxifene (ISO)

rotenone (ISO)

SB 431542 (ISO)

simvastatin (EXP)

sodium arsenate (ISO)

sodium arsenite (ISO)

sotorasib (ISO)

sterigmatocystin (EXP)

temozolomide (ISO)

toluene (EXP)

trametinib (ISO)

trichloroethene (EXP)

trichostatin A (ISO)

triclosan (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

biological_process (ND)

regulation of long-term synaptic potentiation (IBA)

regulation of presynaptic cytosolic calcium ion concentration (IBA,IEA)

Cellular Component

cuticular plate (IDA)

cytosol (IBA,IEA,ISO)

dendrite (IBA)

gap junction (IEA,ISO)

neuronal cell body (ISO)

nucleus (IBA)

parallel fiber to Purkinje cell synapse (IEA,ISO)

presynapse (IEA)

stereocilium (IDA)

synapse (EXP,IBA,IDA,IEP)

terminal bouton (HDA,IBA)

vestibular calyx terminal (ISO)

Molecular Function

calcium ion binding (IBA,IDA)

calcium ion binding involved in regulation of presynaptic cytosolic calcium ion concentration (IEA,ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

calcium/calcium-mediated signaling pathway (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	De novo expression of calretinin in trimethyltin-induced degeneration of developing rat hippocampus.	Businaro R, etal., Brain Res Mol Brain Res 2002 Jan 31;98(1-2):141-4.
2.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3.	The concentrations of calcium buffering proteins in mammalian cochlear hair cells.	Hackney CM, etal., J Neurosci. 2005 Aug 24;25(34):7867-75.
4.	Calretinin and CD34 immunoreactivity of the endometrial stroma in normal endometrium and change of the immunoreactivity in dysfunctional uterine bleeding with evidence of 'disordered endometrial stroma'.	Mai KT, etal., Pathology. 2008 Aug;40(5):493-9.
5.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
6.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
7.	Structural and biochemical characterization of neuronal calretinin domain I-II (residues 1-100). Comparison to homologous calbindin D28k domain I-II (residues 1-93).	Palczewska M, etal., Eur J Biochem. 2001 Dec;268(23):6229-37.
8.	GOA pipeline	RGD automated data pipeline
9.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
10.	Comprehensive gene review and curation	RGD comprehensive gene curation
11.	Cytosolic Ca2+ buffers.	Schwaller B, Cold Spring Harb Perspect Biol. 2010 Nov;2(11):a004051. doi: 10.1101/cshperspect.a004051. Epub 2010 Oct 13.
12.	Nucleotide sequence of rat calretinin cDNA.	Strauss KI and Jacobowitz DM, Neurochem Int 1993 Jun;22(6):541-6.
13.	Immunocytochemical detection of calretinin in the claustrum and endopiriform nucleus of the chinchilla.	Szalak R, etal., Pol J Vet Sci. 2015;18(4):857-63. doi: 10.1515/pjvs-2015-0111.
14.	Composition of isolated synaptic boutons reveals the amounts of vesicle trafficking proteins.	Wilhelm BG, etal., Science. 2014 May 30;344(6187):1023-8. doi: 10.1126/science.1252884.
15.	Distribution of calretinin, calbindin D28k, and parvalbumin in subcellular fractions of rat cerebellum: effects of calcium.	Winsky L and Kuznicki J, J Neurochem. 1995 Jul;65(1):381-8.

Additional References at PubMed

PMID:1988053	PMID:7918640	PMID:12477932	PMID:12577320	PMID:12868005	PMID:14730585	PMID:15093134	PMID:15355314	PMID:15489334	PMID:17177263	PMID:17965879	PMID:18720478
PMID:18769561	PMID:21080000	PMID:21394464	PMID:21835217	PMID:22037839	PMID:22221733	PMID:23273895	PMID:24134921	PMID:25730969	PMID:25813826	PMID:33040447

Genomics

Comparative Map Data

Calb2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	19	38,114,435 - 38,141,438 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	19	38,114,424 - 38,141,438 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	19	44,920,886 - 44,947,919 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	19	45,574,230 - 45,601,269 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	19	47,883,801 - 47,910,840 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	19	41,482,743 - 41,509,617 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	19	41,482,728 - 41,509,658 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	19	52,310,641 - 52,337,700 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	19	40,023,072 - 40,051,150 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	19	40,027,952 - 40,056,031 (-)	NCBI
Celera	19	37,512,226 - 37,538,062 (-)	NCBI		Celera
Cytogenetic Map	19	q12	NCBI

CALB2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	16	71,358,723 - 71,390,433 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	16	71,358,713 - 71,390,436 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	16	71,392,626 - 71,424,336 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	16	69,950,127 - 69,981,842 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	16	69,950,126 - 69,981,836	NCBI
Celera	16	55,708,128 - 55,740,202 (+)	NCBI		Celera
Cytogenetic Map	16	q22.2	NCBI
HuRef	16	57,186,719 - 57,192,385 (+)	NCBI		HuRef
HuRef	16	57,160,840 - 57,186,546 (+)	NCBI		HuRef
CHM1_1	16	72,805,453 - 72,837,193 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	16	77,174,637 - 77,207,658 (+)	NCBI		T2T-CHM13v2.0

Calb2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	8	110,869,158 - 110,894,844 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	8	110,864,134 - 110,894,842 (-)	Ensembl		GRCm39 Ensembl
GRCm38	8	110,142,526 - 110,168,212 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	8	110,137,502 - 110,168,210 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	8	112,666,438 - 112,692,106 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	8	113,031,667 - 113,057,335 (-)	NCBI		MGSCv36	mm8
Celera	8	114,365,078 - 114,391,219 (-)	NCBI		Celera
Cytogenetic Map	8	D3	NCBI
cM Map	8	57.44	NCBI

Calb2
(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 Ensembl	NW_004955484	4,075,067 - 4,103,559 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955484	4,075,103 - 4,103,509 (+)	NCBI	ChiLan1.0	ChiLan1.0

CALB2
(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	16	88,702,425 - 88,982,493 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	16	53,620,317 - 53,653,372 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	16	71,195,770 - 71,227,937 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	16	71,195,770 - 71,227,937 (+)	Ensembl	panpan1.1		panPan2

CALB2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	5	77,178,158 - 77,205,663 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	5	77,177,951 - 77,205,671 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	5	77,139,985 - 77,167,208 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	5	77,616,925 - 77,644,159 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	5	77,616,951 - 77,644,096 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	5	77,437,354 - 77,464,585 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	5	77,260,506 - 77,287,715 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	5	77,759,356 - 77,786,581 (+)	NCBI		UU_Cfam_GSD_1.0

Calb2
(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	37,217,095 - 37,244,688 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936475	22,341,822 - 22,372,609 (-)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936475	22,344,416 - 22,372,015 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CALB2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	6	14,391,857 - 14,420,663 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	6	14,392,220 - 14,420,663 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	13,904,114 - 13,933,267 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CALB2
(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	54,503,635 - 54,538,304 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	5	54,504,082 - 54,538,441 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666047	17,312,991 - 17,345,343 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Calb2
(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_female_1.0 Ensembl	NW_004624746	13,548,540 - 13,578,501 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624746	13,549,339 - 13,577,929 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Calb2
88 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	88
Count of miRNA genes:	73
Interacting mature miRNAs:	83
Transcripts:	ENSRNOT00000022943
Prediction methods:	Miranda, Rnahybrid, Targetscan
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

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
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
61423	Cia14	Collagen induced arthritis QTL 14	3		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	19	10827970	43544039	Rat
7411549	Bw130	Body weight QTL 130	5	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	19	15455860	57337602	Rat
1331788	Rf45	Renal function QTL 45	2.818		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	19	15605023	46559041	Rat
1578764	Stresp19	Stress response QTL 19	3.6	0.001	blood renin amount (VT:0003349)	plasma renin activity level (CMO:0000116)	19	15630201	57337602	Rat
2298478	Eau8	Experimental allergic uveoretinitis QTL 8		0.0163	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	19	17154433	57337602	Rat
61350	Bp32	Blood pressure QTL 32		0.012	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	19	20483575	57337602	Rat
1549835	Tcas7	Tongue tumor susceptibility QTL 7		0.001	tongue integrity trait (VT:0010553)	squamous cell carcinoma of the head and neck tumor number (CMO:0001876)	19	24817978	39654489	Rat
724546	Kidm3	Kidney mass QTL 3	3.1		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	19	29322490	57337602	Rat
1358200	Insglur2	Insulin/glucose ratio QTL 2	4.1		blood glucose amount (VT:0000188)	serum insulin level (CMO:0000358)	19	33838214	55283146	Rat
1358200	Insglur2	Insulin/glucose ratio QTL 2	4.1		blood glucose amount (VT:0000188)	serum glucose level (CMO:0000543)	19	33838214	55283146	Rat

Markers in Region

D19Rat71

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	19	38,130,095 - 38,130,307 (-)	MAPPER	mRatBN7.2
Rnor_6.0	19	41,493,877 - 41,494,088	NCBI	Rnor6.0
Rnor_5.0	19	52,321,960 - 52,322,171	UniSTS	Rnor5.0
RH 3.4 Map	19	437.4	RGD
RH 3.4 Map	19	437.4	UniSTS
RH 2.0 Map	19	481.8	RGD
SHRSP x BN Map	19	27.8698	RGD
Cytogenetic Map	19	q12	UniSTS

X73985

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	19	38,114,703 - 38,114,871 (-)	MAPPER	mRatBN7.2
Rnor_6.0	19	41,509,181 - 41,509,348	NCBI	Rnor6.0
Rnor_5.0	19	52,337,264 - 52,337,431	UniSTS	Rnor5.0
RGSC_v3.4	19	40,023,341 - 40,023,508	UniSTS	RGSC3.4
Celera	19	37,512,495 - 37,512,662	UniSTS
Cytogenetic Map	19	q12	UniSTS

RH138609

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	19	38,114,524 - 38,114,704 (-)	MAPPER	mRatBN7.2
Rnor_6.0	19	41,509,348 - 41,509,527	NCBI	Rnor6.0
Rnor_5.0	19	52,337,431 - 52,337,610	UniSTS	Rnor5.0
RGSC_v3.4	19	40,023,162 - 40,023,341	UniSTS	RGSC3.4
Celera	19	37,512,316 - 37,512,495	UniSTS
RH 3.4 Map	19	437.3	UniSTS
Cytogenetic Map	19	q12	UniSTS

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	2								72		19
Low	1		9	1	13	1	2	2	2	16	18	3	2
Below cutoff		26	25	21	6	21	6	6		12	4	3	6

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_053988	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC087603	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473972	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000313	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	X66974	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000022943 ⟹ ENSRNOP00000022943

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	19	38,114,435 - 38,141,438 (-)	Ensembl
Rnor_6.0 Ensembl	19	41,482,728 - 41,509,658 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000096342 ⟹ ENSRNOP00000090456

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	19	38,114,424 - 38,138,156 (-)	Ensembl

RefSeq Acc Id:

NM_053988 ⟹ NP_446440

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	19	38,114,435 - 38,141,438 (-)	NCBI
Rnor_6.0	19	41,482,743 - 41,509,617 (+)	NCBI
Rnor_5.0	19	52,310,641 - 52,337,700 (+)	NCBI
RGSC_v3.4	19	40,023,072 - 40,051,150 (-)	RGD
Celera	19	37,512,226 - 37,538,062 (-)	RGD

Sequence:

show sequence

GGGCGGCACCGAGTGACAGCGCTGAGAGGCTTAAGATCTCCGGAGCCGCTCGCCATGGCTGGCC
CGCAGCAGCAGCCCCCTTACCTGCACCTGGCCGAGCTGACTGCATCCCAGTTCCTGGAAATCTG
GAAGCACTTTGATGCTGACGGAAATGGGTACATTGAAGGTAAAGAGCTAGAAAACTTCTTCCAG
GAGCTGGAGAAGGCAAGGAAAGGTTCTGGCATGATGTCCAAGAGCGACAATTTTGGAGAGAAGA
TGAAGGAGTTCATGCAGAAGTATGATAAGAACTCAGATGGGAAAATTGAGATGGCAGAGCTGGC
GCAGATCCTGCCAACCGAAGAGAATTTCCTTTTGTGCTTCAGGCAGCACGTGGGCTCCAGCGCT
GAGTTTATGGAGGCTTGGCGGAAGTATGACACAGACAGAAGTGGCTACATCGAAGCAAATGAGC
TCAAGGGATTTCTGTCCGACCTCCTGAAGAAGGCCAACCGTCCCTATGATGAACCTAAGCTCCA
GGAGTACACCCAAACCATACTACGCATGTTTGACTTAAATGGAGACGGCAAATTGGGTCTCTCA
GAGATGTCTAGACTCTTGCCTGTACAAGAAAACTTCCTGCTGAAATTTCAGGGTATGAAGCTGA
CCTCAGAAGAGTTCAATGCCATCTTCACATTCTATGACAAGGATGGAAGCGGCTACATCGATGA
GAACGAGCTGGACGCCCTCCTGAAGGATCTGTATGAGAAGAACAAGAAGGAGATGAATATCCAG
CAGCTCACCACCTACAGGAAGAGCGTCATGTCCTTGGCCGAGGCAGGGAAACTCTACAGAAAGG
ACCTGGAGATTGTGCTTTGCAGTGAGCCCCCCATGTAAAGGGGTGAAGGGACAGGGGCTGCTTC
TGCACCTCCCCTAAACCCTGCCCCCCACTGCCCTGACTCTCTTGAAACTCCTTCCCAGACCTCT
CCACCCCTGCAACCTGCACACACCAGCCTGTGGGGCAGGAAAGGAGAGATGGAAAGAGGGTGGC
TGGTAGCATTCCTTTGAGCTGCACCAGCCCAACCCTGGCCTGACAGACAGCTGTGCCTGTGGTG
GGTGGGTCACACGGTTGGTGGGTAGGGGCACAGGTGGGGCTTCCCTAGTCTCTTTGCTGTGATG
CATGAGCTCCTCGCTGTATGATTAGCTTCCGAGTCCAACAGAGTGCACTCCTTCCTCTTGCTGC
ACCAGCCTCCTTCTCCCCAGGCCCCCCACTGACCCCCGCAATTCCAGGTTCTGTCCACCGGCTT
GCTAATGATATAACTGTCTTCTCAGAGCTACTGTGGAGGGTCATTGCCCTCTTCTTGTGTTCTT
GACTTGTGTGTTCCTTTTATTTTGGGGTTTCCCTGTCTTCTCGTTTACCAAAGAAGAGTTTACA
GAGAATAAAGTGGAAATGTCCTGCCGTGAAAAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_446440	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH87603	(Get FASTA)	NCBI Sequence Viewer
	CAA47385	(Get FASTA)	NCBI Sequence Viewer
	EDL92531	(Get FASTA)	NCBI Sequence Viewer
	EDL92532	(Get FASTA)	NCBI Sequence Viewer
	EDL92533	(Get FASTA)	NCBI Sequence Viewer
	P47728	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_446440 ⟸ NM_053988

- UniProtKB:

P47728 (UniProtKB/Swiss-Prot), A6IZ54 (UniProtKB/TrEMBL), A0A8I6ADK6 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MAGPQQQPPYLHLAELTASQFLEIWKHFDADGNGYIEGKELENFFQELEKARKGSGMMSKSDNF
GEKMKEFMQKYDKNSDGKIEMAELAQILPTEENFLLCFRQHVGSSAEFMEAWRKYDTDRSGYIE
ANELKGFLSDLLKKANRPYDEPKLQEYTQTILRMFDLNGDGKLGLSEMSRLLPVQENFLLKFQG
MKLTSEEFNAIFTFYDKDGSGYIDENELDALLKDLYEKNKKEMNIQQLTTYRKSVMSLAEAGKL
YRKDLEIVLCSEPPM

hide sequence

RefSeq Acc Id:

ENSRNOP00000022943 ⟸ ENSRNOT00000022943

RefSeq Acc Id:

ENSRNOP00000090456 ⟸ ENSRNOT00000096342

Protein Domains

EF-hand

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-P47728-F1-model_v2	AlphaFold	P47728	1-271	view protein structure

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:620981	AgrOrtholog
BioCyc Gene	G2FUF-5694	BioCyc
Ensembl Genes	ENSRNOG00000016977	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000022943	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOP00000090456.1	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000022943	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOT00000096342.1	UniProtKB/TrEMBL
Gene3D-CATH	EF-hand	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7312595	IMAGE-MGC_LOAD
InterPro	CALB2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	EF-hand-dom_pair	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	EF_Hand_1_Ca_BS	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	EF_hand_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:117059	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:105356	IMAGE-MGC_LOAD
NCBI Gene	117059	ENTREZGENE
PANTHER	CALBINDIN	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PTHR19972:SF4	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	EF-hand_1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	EF-hand_5	UniProtKB/TrEMBL
	EF-hand_7	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Calb2	PhenoGen
PROSITE	EF_HAND_1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	EF_HAND_2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART	EFh	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF47473	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A0A8I6ADK6	ENTREZGENE, UniProtKB/TrEMBL
	A6IZ53_RAT	UniProtKB/TrEMBL
	A6IZ54	ENTREZGENE, UniProtKB/TrEMBL
	A6IZ55_RAT	UniProtKB/TrEMBL
	CALB2_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2002-08-06	Calb2	calbindin 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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Imported Disease Annotations - CTD

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Imported Disease Annotations - ClinVar

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