Cgref1 (cell growth regulator with EF hand domain 1)

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Gene: Cgref1 (cell growth regulator with EF hand domain 1) Rattus norvegicus

Analyze

Symbol:

Cgref1

Name:

cell growth regulator with EF hand domain 1

RGD ID:

620801

Description:

Predicted to have calcium ion binding activity. Involved in negative regulation of cell growth. Predicted to localize to extracellular region. Orthologous to human CGREF1 (cell growth regulator with EF-hand domain 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 2-nitrofluorene.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

cell growth regulator with EF hand domain protein 1; cell growth regulatory gene 11 protein; cell growth regulatory with EF-hand domain; Cgr11; hydrophobestin

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rnor_6.0	6	26,797,126 - 26,809,132 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	26,797,126 - 26,809,129 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	36,612,741 - 36,624,747 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	25,414,812 - 25,426,818 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	6	25,417,842 - 25,429,770 (+)	NCBI
Celera	6	24,922,567 - 24,934,501 (+)	NCBI		Celera
Cytogenetic Map	6	q14	NCBI
RH 3.4 Map	6	119.2	RGD

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

essential fructosuria (ISO)

Liver Neoplasms (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(S)-nicotine (ISO)

1,2-dimethylhydrazine (ISO)

17beta-estradiol (ISO)

2,2',4,4'-Tetrabromodiphenyl ether (ISO)

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

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

2-nitrofluorene (EXP)

4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one (EXP)

4-hydroxyphenyl retinamide (ISO)

7,12-dimethyltetraphene (ISO)

acetamide (EXP)

aflatoxin B1 (EXP,ISO)

alachlor (EXP)

all-trans-retinoic acid (ISO)

ammonium chloride (EXP)

benzo[a]pyrene (ISO)

benzo[b]fluoranthene (ISO)

benzo[e]pyrene (ISO)

bisphenol A (EXP)

bortezomib (ISO)

cadmium dichloride (EXP)

carbon nanotube (ISO)

carmustine (EXP)

chlorpromazine (EXP)

chlorpyrifos (EXP)

choline (ISO)

ciguatoxin CTX1B (ISO)

cisplatin (ISO)

copper atom (EXP)

copper(0) (EXP)

copper(II) sulfate (ISO)

cyclosporin A (ISO)

deoxynivalenol (ISO)

diazinon (EXP)

dibenz[a,h]anthracene (ISO)

diclofenac (ISO)

diethylstilbestrol (EXP)

dimethyl sulfoxide (ISO)

dioxygen (ISO)

endosulfan (EXP)

entinostat (ISO)

etoposide (ISO)

flavonoids (EXP)

folic acid (ISO)

furan (EXP,ISO)

hydrogen peroxide (ISO)

L-methionine (ISO)

lead diacetate (EXP)

lead(0) (ISO)

lead(2+) (ISO)

manganese(II) chloride (EXP)

methapyrilene (EXP,ISO)

methotrexate (EXP)

N-methyl-4-phenylpyridinium (EXP)

N-nitrosodiethylamine (ISO)

N-nitrosodimethylamine (EXP)

nicotine (ISO)

orphenadrine (EXP)

paracetamol (ISO)

piperonyl butoxide (EXP)

pirinixic acid (EXP,ISO)

propiconazole (ISO)

silicon dioxide (ISO)

sodium dichromate (EXP)

sunitinib (ISO)

tebuconazole (ISO)

tetrachloromethane (EXP,ISO)

thioacetamide (EXP)

tioguanine (EXP)

titanium dioxide (ISO)

tunicamycin (ISO)

urethane (ISO)

valproic acid (ISO)

vancomycin (ISO)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cell adhesion (IEA)

cell cycle arrest (IEA)

negative regulation of cell growth (IDA)

Cellular Component

extracellular region (IEA)

Molecular Function

calcium ion binding (IEA)

protein binding (ISO)

References

References - curated


1.	GOA data from the GO Consortium
2.	Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
3.	Madden SL, etal., Cancer Res 1996 Dec 1;56(23):5384-90.
4.	MGD data from the GO Consortium
5.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
6.	RGD automated data pipeline
7.	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:8889548	PMID:19473726

Genomics

Comparative Map Data

Cgref1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rnor_6.0	6	26,797,126 - 26,809,132 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	26,797,126 - 26,809,129 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	36,612,741 - 36,624,747 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	25,414,812 - 25,426,818 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	6	25,417,842 - 25,429,770 (+)	NCBI
Celera	6	24,922,567 - 24,934,501 (+)	NCBI		Celera
Cytogenetic Map	6	q14	NCBI
RH 3.4 Map	6	119.2	RGD

CGREF1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	2	27,098,889 - 27,119,128 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	2	27,099,353 - 27,119,128 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	2	27,322,159 - 27,341,995 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	27,176,973 - 27,195,475 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	2	27,235,119 - 27,253,622	NCBI
Celera	2	27,168,567 - 27,188,302 (-)	NCBI
Cytogenetic Map	2	p23.3	NCBI
HuRef	2	27,064,526 - 27,084,159 (-)	NCBI		HuRef
CHM1_1	2	27,252,137 - 27,271,942 (-)	NCBI		CHM1_1

Cgref1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	31,090,487 - 31,102,824 (-)	NCBI	GRCm39		mm39
GRCm38	5	30,933,143 - 30,945,480 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	30,933,143 - 30,945,591 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	5	31,235,516 - 31,247,853 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	5	31,209,724 - 31,222,166 (-)	NCBI			mm8
Celera	5	28,412,941 - 28,425,273 (-)	NCBI		Celera
Cytogenetic Map	5	B1	NCBI

Cgref1
(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_004955469	9,072,563 - 9,086,615 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955469	9,072,333 - 9,086,427 (-)	NCBI	ChiLan1.0	ChiLan1.0

CGREF1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	2A	27,189,151 - 27,207,263 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2A	27,188,352 - 27,199,407 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	2A	27,098,387 - 27,118,129 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

CGREF1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	17	21,093,664 - 21,106,797 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Cgref1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936493	5,429,397 - 5,444,219 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CGREF1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1	3	112,006,596 - 112,020,211 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	119,000,618 - 119,018,207 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CGREF1
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	14	80,500,056 - 80,516,893 (+)	NCBI
ChlSab1.1 Ensembl	14	80,513,701 - 80,516,698 (+)	Ensembl

Cgref1
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624738	9,203,367 - 9,216,485 (-)	NCBI

Position Markers

AW045201

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	6	26,808,742 - 26,808,875	NCBI	Rnor6.0
Rnor_5.0	6	36,624,357 - 36,624,490	UniSTS	Rnor5.0
RGSC_v3.4	6	25,426,428 - 25,426,561	UniSTS	RGSC3.4
Celera	6	24,934,111 - 24,934,244	UniSTS
Cytogenetic Map	6	q14	UniSTS

Cgr11

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	6	26,808,760 - 26,808,951	NCBI	Rnor6.0
Rnor_5.0	6	36,624,375 - 36,624,566	UniSTS	Rnor5.0
RGSC_v3.4	6	25,426,446 - 25,426,637	UniSTS	RGSC3.4
Celera	6	24,934,129 - 24,934,320	UniSTS
Cytogenetic Map	6	q14	UniSTS
RH 3.4 Map	6	119.2	UniSTS

QTLs in Region (Rnor_6.0)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
738023	Alc17	Alcohol consumption QTL 17	3.1	0.003	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	6	1	35623029	Rat
1354616	Despr12	Despair related QTL 12		0.0012	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	6	1	35623029	Rat
1549905	Stresp10	Stress response QTL 10	6.83	0.0066	stress-related behavior trait (VT:0010451)	number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)	6	1	35623029	Rat
2300176	Bmd51	Bone mineral density QTL 51	11.7	0.0001	femur mineral mass (VT:0010011)	bone mineral density (CMO:0001226)	6	1	35623029	Rat
2300190	Bmd52	Bone mineral density QTL 52	11.2	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	6	1	35623029	Rat
1331743	Uae28	Urinary albumin excretion QTL 28	4.5		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	6	1	41917988	Rat
9589048	Scfw3	Subcutaneous fat weight QTL 3	4.57	0.001	subcutaneous adipose mass (VT:1000472)	abdominal subcutaneous fat pad weight (CMO:0002069)	6	1	42388212	Rat
9589129	Insul24	Insulin level QTL 24	19.06	0.001	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	6	1	42388212	Rat
7411603	Foco13	Food consumption QTL 13	5.5	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	6	1	42388212	Rat
7411542	Bw127	Body weight QTL 127	5.5	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	6	1	42388212	Rat
8552962	Pigfal16	Plasma insulin-like growth factor 1 level QTL 16	9.4		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	6	1	42388212	Rat
2293709	Bss23	Bone structure and strength QTL 23	5.18	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	6	1	43665660	Rat
2293650	Bss31	Bone structure and strength QTL 31	5.05	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	6	1	43665660	Rat
2293656	Bss28	Bone structure and strength QTL 28	6.79	0.0001	femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	6	1	43665660	Rat
7411584	Foco4	Food consumption QTL 4	4.3	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	6	1	44015370	Rat
738024	Sach5	Saccharine consumption QTL 5	3.9	0.00039	consumption behavior trait (VT:0002069)	saccharin intake volume to total fluid intake volume ratio (CMO:0001601)	6	1	44570292	Rat
2301972	Bp325	Blood pressure QTL 325	4.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	6	1	75623393	Rat
1359023	Bp272	Blood pressure QTL 272	2.5		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	6	1120393	28706721	Rat
2292589	Emca10	Estrogen-induced mammary cancer QTL 10		0.048	mammary gland integrity trait (VT:0010552)	post-insult time to mammary tumor formation (CMO:0000345)	6	1120393	46120393	Rat
1354664	Slep2	Serum leptin concentration QTL 2	4.49		blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	6	1120393	75023446	Rat
1576309	Emca7	Estrogen-induced mammary cancer QTL 7	4		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	6	2537030	111715717	Rat
1578665	Bss16	Bone structure and strength QTL 16	4.4		femur morphology trait (VT:0000559)	bone trabecular cross-sectional area (CMO:0002311)	6	6161722	76002731	Rat
1578668	Bmd14	Bone mineral density QTL 14	3.8		femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	6	6161722	76002731	Rat
4145119	Mcs25	Mammary carcinoma susceptibility QTL 25		0.0001	mammary gland integrity trait (VT:0010552)	ratio of deaths to total study population during a period of time (CMO:0001023)	6	7009971	115379601	Rat
634322	Bw12	Body weight QTL 12	0		body mass (VT:0001259)	body weight (CMO:0000012)	7	10173862	55173862	Rat
1300128	Rf16	Renal function QTL 16	3.89		renal blood flow trait (VT:2000006)	absolute change in renal blood flow rate (CMO:0001168)	6	13122958	34367603	Rat
1300164	Rf15	Renal function QTL 15	3.12		renal blood flow trait (VT:2000006)	absolute change in renal blood flow rate (CMO:0001168)	6	13122958	57516539	Rat
10401812	Kidm54	Kidney mass QTL 54			kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	6	16810107	61810107	Rat
10401800	Kidm49	Kidney mass QTL 49			kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	6	16810107	61810107	Rat
8552910	Pigfal5	Plasma insulin-like growth factor 1 level QTL 5	4.3		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	6	19417887	64417887	Rat
1641898	Colcr4	Colorectal carcinoma resistance QTL4	3.71	0.0007	intestine integrity trait (VT:0010554)	well differentiated malignant colorectal tumor surface area measurement (CMO:0002077)	6	21515302	65784818	Rat
2293839	Kiddil2	Kidney dilation QTL 2	4.8		kidney pelvis morphology trait (VT:0004194)	hydronephrosis severity score (CMO:0001208)	6	22042854	84763421	Rat
2293841	Kiddil4	Kidney dilation QTL 4	4.4		kidney pelvis morphology trait (VT:0004194)	hydronephrosis severity score (CMO:0001208)	6	22042854	84763421	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	47
Count of miRNA genes:	41
Interacting mature miRNAs:	44
Transcripts:	ENSRNOT00000010586
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.

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	3		8	8		8			50	27
Low		42	44	31	9	31	6	9	24	8	40	11	6
Below cutoff		1	5	2	10	2	2	2			1		2

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_139087	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AAHX01042334	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AAHX01042335	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AC120639	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BI279285	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473947	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FM040765	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ220335	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U66470	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000010586 ⟹ ENSRNOP00000010586

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	6	26,797,126 - 26,809,129 (+)	Ensembl

RefSeq Acc Id:

NM_139087 ⟹ NP_620787

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	6	26,797,126 - 26,809,132 (+)	NCBI
Rnor_5.0	6	36,612,741 - 36,624,747 (+)	NCBI
RGSC_v3.4	6	25,414,812 - 25,426,818 (+)	RGD
Celera	6	24,922,567 - 24,934,501 (+)	RGD

Sequence:

show sequence

GGAATGGCCACGTGGAGCGGCCCGGGGGAGGGCTGGCTGCCGGCAGCCGGGCGAGGGCGGCGCG
GTGCCTATAACGCGCACGAAGCCGGAGCCCCAGACGCGCACAGCGCCGCCGCAGCAGCTCCGGT
GTTCAGCAGGATGTCCCGGTGGCTAATGCAAATGTTGATGCTGCCCCTATTGCTGCTCCCTTTG
GGTCAAGCTGCCCCCAAGGATGGAGTTGCAAGGCTGGACCCTGAGGCACAACAGCAGCTCACAA
CCAACCCCTTCCAGCCAGGCCCTGAGCAGCTCCGACGTCTGCGGGATTATCTCAAGGGACTGGA
GAAGATGGAAGAGGACCCTGAACAAATGAACCGGGAGCAAGTCCTGCTATATCTCTTTGCTCTT
CACGACTTTGACCAGAACGGACAACTGGACGGCCTGGAACTCTTGTCCATGCTGACAGCAGCTC
TGGCCCCTGGAGCTGCACACTTCCCCATCAACCCGGTGATCCTGGTAGTAGACATGGTGCTTGA
GACTCAGGACCTGGATGGAGACGGGCTCATGACTCCTGCAGAGCTCATCAACTTCCCAGGAGAA
GCCCCCAAGCGCGCAGAGTCCCTTCCCCCAGCTCTCCAGGAGCCACAACCTGCCGGAAGTCAGC
CGCTTTTAGCCAACAGTCCGCTGCAATCAGAAACCCAGCAATCCCTGGGGACTAAAGAAGAAAT
TACAAGTCAGGTAGAGGCCAAAAGGGCCTTGGAGCCTGAACAGGAGGCTGGACATCACATAGAG
ACTAAAGTAGATGCTCTAAGCCCTGAAGGGGAGGCTAGGGGTCAGGCAGAGTCTGAAGGAGATG
CCCCAGGTCCCCGAGAGGATGCTGAGAGACAGGTGGAGAGCAAGGACAACGAAGGGGAAGCCAA
AGACCTGCCAGCGGAAACACTAGAGACCCAAAACACTCCAAATGTGGTTGAGGCTCATAGCATC
CAACTGGAAAACGACGAGATATGAGCTAGACACACAGGCTCATGCCCCTCAGGATCTCAGTGCA
GAACAGAAGCATGAAGTGTGAATACAGTGGGTCTGGAGCCACCTCTGACATGGGTATGGTGGTC
CAAGCTCGTACTCCCAGAAGCACTGAGAGCTCCAGGCTAGCCTAGGCCACTTAGCAAGTTTGAA
GCCAGGCTGGGCTACTTCGTGAGGCCCTGTCTTGAGGAGGGGAAAAGAAACGCACTCCCACGTC
TCCTTTCTGGCCTCAGTAGGAAGCAGGACTTTCTTCGCAGCTCAGGGAGACCACAAGCTGAGAG
GCAGATTTCAGGCCCCAAACAATCAATAAAAAACAAAATGGATTTGTCTCCATAAAAAAAAAAA
AAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_620787	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAC52950	(Get FASTA)	NCBI Sequence Viewer
	EDM02961	(Get FASTA)	NCBI Sequence Viewer
	EDM02962	(Get FASTA)	NCBI Sequence Viewer
	EDM02963	(Get FASTA)	NCBI Sequence Viewer
	P97586	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_620787 ⟸ NM_139087

- UniProtKB:

P97586 (UniProtKB/Swiss-Prot), A0A0A0MXV3 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MATWSGPGEGWLPAAGRGRRGAYNAHEAGAPDAHSAAAAAPVFSRMSRWLMQMLMLPLLLLPLG
QAAPKDGVARLDPEAQQQLTTNPFQPGPEQLRRLRDYLKGLEKMEEDPEQMNREQVLLYLFALH
DFDQNGQLDGLELLSMLTAALAPGAAHFPINPVILVVDMVLETQDLDGDGLMTPAELINFPGEA
PKRAESLPPALQEPQPAGSQPLLANSPLQSETQQSLGTKEEITSQVEAKRALEPEQEAGHHIET
KVDALSPEGEARGQAESEGDAPGPREDAERQVESKDNEGEAKDLPAETLETQNTPNVVEAHSIQ
LENDEI

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RefSeq Acc Id:

ENSRNOP00000010586 ⟸ ENSRNOT00000010586

Protein Domains

EF-hand

Transcriptome

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

Promoters

RGD ID:

13694453

Promoter ID:

EPDNEW_R4976

Type:

initiation region

Name:

Cgref1_1

Description:

cell growth regulator with EF hand domain 1

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	6	26,797,198 - 26,797,258	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

ACI/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

ACI/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

BBDP/Wor (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

BN/SsN (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Buf/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

COP/CrCrl (MCW & UW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob) University of Wisconsin (Dr. James Shull)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Charles River Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)

F344/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

F344/NRrrc (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

FHH/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHH/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

FHL/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHL/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

GH/OmrMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

GK/Ox (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LE/Stm (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/Crl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/NCrlBR (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LH/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LL/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LN/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

M520/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

MHS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MNS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MR/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

SBH/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBH/Ygl sequenced by MCW

SBH/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SBN/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBN/Ygl sequenced by MCW

SBN/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHR/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHRSP/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SR/JrHsd (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Harlan Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SR/JrHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/Jr (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/JrHsdMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SS/JrHsdMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WAG/Rij (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

WKY/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WN/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Damaging Variants

Assembly: Rnor_5.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
6	36612765	36612766	G	A	snv	SBN/Ygl (KNAW), LE/Stm (Illumina) (KNAW), SBN/Ygl (MCW)

Assembly: Rnor_6.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
6	26797150	26797151	G	A	snv	LE/Stm (RGD), SBN/Ygl (RGD), SBN/Ygl (MCW)

Assembly: RGSC_v3.4

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
6	25414836	25414837	G	A	snv	SBN/Ygl (ICL), LE/Stm (ICL)

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:620801	AgrOrtholog
Ensembl Genes	ENSRNOG00000007923	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000010586	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000010586	ENTREZGENE, UniProtKB/TrEMBL
InterPro	CGREF1	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:245918	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene	245918	ENTREZGENE
PANTHER	PTHR23104:SF11	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	EF-hand_6	UniProtKB/Swiss-Prot
PhenoGen	Cgref1	PhenoGen
PROSITE	EF_HAND_1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	EF_HAND_2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF47473	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniGene	Rn.31842	ENTREZGENE
UniProt	A0A0A0MXV3	ENTREZGENE, UniProtKB/TrEMBL
	CGRE1_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2004-03-01	Cgref1	cell growth regulator with EF hand domain 1	Cgr11	cell growth regulatory with EF-hand domain	Symbol and Name updated to reflect Human and Mouse nomenclature	625702	APPROVED
2002-08-07	Cgr11	cell growth regulatory with EF-hand domain			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_protein	induced by p53	632480

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)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD