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Gene: Cimap3 (ciliary microtubule associated protein 3) Rattus norvegicus

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Symbol:

Cimap3

Name:

ciliary microtubule associated protein 3

RGD ID:

1586282

Description:

Predicted to enable cytoskeletal protein binding activity and enzyme binding activity. Predicted to be involved in positive regulation of kinase activity and regulation of cell projection organization. Predicted to act upstream of or within with a positive effect on cilium organization. Predicted to act upstream of or within embryonic heart tube left/right pattern formation. Predicted to be located in ciliary basal body; nucleus; and trans-Golgi network. Orthologous to human CIMAP3 (ciliary microtubule associated protein 3); INTERACTS WITH bisphenol A; Cuprizon; fenvalerate.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

ciliary microtubule-associated protein 3; hypothetical protein LOC691223; LOC691223; Pifo; primary cilia formation; protein pitchfork; uncharacterized protein LOC691223

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	2	196,164,103 - 196,181,466 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	2	196,163,275 - 196,181,604 (-)	Ensembl				GRCr8
mRatBN7.2	2	193,475,785 - 193,493,092 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	2	193,475,782 - 193,493,139 (-)	Ensembl				mRatBN7.2
Dahl_SR_JrHsd	2	195,744,536 - 195,761,922 (-)	NCBI
Lyon_Normotensive	2	195,983,742 - 196,001,124 (-)	NCBI
Lyon_Hypertensive	2	195,618,521 - 195,635,830 (-)	NCBI
F344_StmMcwi	2	195,731,953 - 195,749,262 (-)	NCBI
Rnor_6.0	2	208,616,592 - 208,633,961 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	2	208,616,589 - 208,633,945 (-)	Ensembl		Rnor_6.0 Ensembl	rn6	Rnor6.0
Rnor_5.0	2	228,037,805 - 228,055,061 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	2	201,247,609 - 201,254,234 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	2	186,178,234 - 186,184,986 (-)	NCBI		Celera
Cytogenetic Map	2	q34	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Breast Cancer, Familial (ISO)

cholangiocarcinoma (ISO)

esophageal cancer (ISO)

ovarian serous cystadenocarcinoma (ISO)

stomach cancer (ISO)

urinary bladder cancer (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

all-trans-retinoic acid (ISO)

amiodarone (ISO)

belinostat (ISO)

benzo[a]pyrene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

carbon nanotube (ISO)

Cuprizon (EXP)

cyclosporin A (ISO)

DDE (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

entinostat (ISO)

ethylparaben (ISO)

fenvalerate (EXP)

mercury dibromide (ISO)

methyl methanesulfonate (ISO)

mono(2-ethylhexyl) phthalate (ISO)

okadaic acid (ISO)

panobinostat (ISO)

phenylmercury acetate (ISO)

SB 431542 (ISO)

sunitinib (ISO)

titanium dioxide (ISO)

urethane (ISO)

valproic acid (ISO)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cilium organization (IBA,ISO)

embryonic heart tube left/right pattern formation (ISO)

positive regulation of kinase activity (ISO)

regulation of cell projection organization (IBA,ISO)

Cellular Component

ciliary basal body (IBA,ISO)

cytoplasm (ISO)

nucleus (ISO)

trans-Golgi network (ISO)

Molecular Function

beta-tubulin binding (IEA,ISO)

gamma-tubulin binding (IEA,ISO)

kinesin binding (IEA,ISO)

protein kinase activator activity (IBA)

protein kinase binding (IEA,ISO)

small GTPase binding (IEA,ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	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.
2.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:20643351

Genomics

Comparative Map Data

Cimap3
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	2	196,164,103 - 196,181,466 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	2	196,163,275 - 196,181,604 (-)	Ensembl				GRCr8
mRatBN7.2	2	193,475,785 - 193,493,092 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	2	193,475,782 - 193,493,139 (-)	Ensembl				mRatBN7.2
Dahl_SR_JrHsd	2	195,744,536 - 195,761,922 (-)	NCBI
Lyon_Normotensive	2	195,983,742 - 196,001,124 (-)	NCBI
Lyon_Hypertensive	2	195,618,521 - 195,635,830 (-)	NCBI
F344_StmMcwi	2	195,731,953 - 195,749,262 (-)	NCBI
Rnor_6.0	2	208,616,592 - 208,633,961 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	2	208,616,589 - 208,633,945 (-)	Ensembl		Rnor_6.0 Ensembl	rn6	Rnor6.0
Rnor_5.0	2	228,037,805 - 228,055,061 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	2	201,247,609 - 201,254,234 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	2	186,178,234 - 186,184,986 (-)	NCBI		Celera
Cytogenetic Map	2	q34	NCBI

CIMAP3
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	111,324,663 - 111,353,017 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	1	111,346,269 - 111,355,113 (+)	Ensembl		GRCh38.p14 Ensembl	hg38	GRCh38
GRCh37	1	111,889,182 - 111,895,639 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	111,690,771 - 111,697,158 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Celera	1	110,136,149 - 110,142,593 (+)	NCBI		Celera
Cytogenetic Map	1	p13.2	NCBI
HuRef	1	109,760,637 - 109,767,081 (+)	NCBI		HuRef
CHM1_1	1	112,004,230 - 112,010,674 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	1	111,339,352 - 111,367,700 (+)	NCBI		T2T-CHM13v2.0

Cimap3
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	3	105,904,273 - 105,921,962 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	3	105,903,205 - 105,921,962 (-)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	3	105,996,957 - 106,014,646 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	3	105,996,957 - 106,014,646 (-)	Ensembl		GRCm38.p6 Ensembl	mm10	GRCm38
MGSCv37	3	105,799,588 - 105,817,564 (-)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	3	105,799,588 - 105,817,564 (-)	NCBI		MGSCv36	mm8
Celera	3	108,188,382 - 108,206,446 (-)	NCBI		Celera
Cytogenetic Map	3	F2.2	NCBI
cM Map	3	46.47	NCBI

Cimap3
(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_004955435	14,892,459 - 14,898,092 (+)	Ensembl		ChiLan1.0 Ensembl
ChiLan1.0	NW_004955435	14,888,554 - 14,898,274 (+)	NCBI	ChiLan1.0	ChiLan1.0

CIMAP3
(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	1	115,691,179 - 115,719,510 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	1	114,841,515 - 114,868,346 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	1	113,991,254 - 113,997,982 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	1	126,349,244 - 126,355,968 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	126,349,244 - 126,355,968 (-)	Ensembl		PanPan1.1 Ensembl	panPan2	panpan1.1

LOC611691
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	6	40,730,086 - 40,750,906 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
Dog10K_Boxer_Tasha	6	43,508,218 - 43,528,999 (-)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	6	41,062,527 - 41,082,948 (-)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
UMICH_Zoey_3.1	6	40,744,944 - 40,804,021 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	6	40,753,322 - 40,774,135 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	6	41,188,633 - 41,209,440 (-)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

CIMAP3
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1	4	109,021,109 - 109,033,715 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	119,397,201 - 119,407,103 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CIMAP3
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mChlSab1.0.hap1	20	25,230,798 - 25,237,836 (-)	NCBI		mChlSab1.0.hap1
Vero_WHO_p1.0	NW_023666038	36,222,418 - 36,229,451 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0
ChlSab1.1	20	22,250,933 - 22,269,420 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	20	22,249,682 - 22,256,695 (-)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM

Cimap3
(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_004624772	7,080,535 - 7,096,603 (+)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2
HetGla_female_1.0 Ensembl	NW_004624772	7,091,047 - 7,097,970 (+)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
Naked mole-rat maternal Ensembl	19	15,837,273 - 15,853,038 (-)	Ensembl

Cimap3
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	3	52,115,269 - 52,121,887 (+)	NCBI	Rrattus_CSIRO_v1	Rrattus_CSIRO_v1

Variants

Variants in Cimap3
151 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	82
Count of miRNA genes:	40
Interacting mature miRNAs:	41
Transcripts:	ENSRNOT00000022731, ENSRNOT00000049155
Prediction methods:	Miranda, Rnahybrid
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 (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1358356	Srcrt1	Stress Responsive Cort QTL1	3.66		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	2	163997722	225110681	Rat
1578648	Bss11	Bone structure and strength QTL 11	4.7		femur morphology trait (VT:0000559)	femoral neck cortical cross-sectional area (CMO:0001702)	2	169358774	214358774	Rat
1331734	Bp204	Blood pressure QTL 204	3.61192		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	170656145	239614549	Rat
631566	Bp90	Blood pressure QTL 90		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	149957381	221199885	Rat
1298074	Bp164	Blood pressure QTL 164		0.003	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	44537979	205135428	Rat
1354648	Bp239	Blood pressure QTL 239		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	67845370	229470703	Rat
1354649	Kidm17	Kidney mass QTL 17	2.9		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	2	83465462	229820014	Rat
10755499	Bp389	Blood pressure QTL 389	2.61		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	2	20695736	231474293	Rat
1298076	Bp166	Blood pressure QTL 166		0.0009	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	138595962	205135428	Rat
1581576	Pur7	Proteinuria QTL 7		0.0001	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	2	80396178	220931218	Rat
152025245	Scl81	Serum cholesterol level QTL 81	3.49		blood cholesterol amount (VT:0000180)		2	124537199	209621565	Rat
1581578	Cm49	Cardiac mass QTL 49	4.9	0.01	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	2	145807215	220931416	Rat
61458	Bp10	Blood pressure QTL 10	3.42		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	191709311	217961898	Rat
631198	Cm22	Cardiac mass QTL 22	4.3	0.0008	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	2	78269809	208420281	Rat
1554319	Bmd2	Bone mineral density QTL 2	13.4	0.0001	lumbar vertebra area (VT:0010570)	lumbar vertebra cross-sectional area (CMO:0001689)	2	122597372	215234002	Rat
12879836	Kidm61	Kidney mass QTL 61		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	2	154723085	199723085	Rat
1581569	Uae32	Urinary albumin excretion QTL 32		0.0001	urine protein amount (VT:0005160)	urine albumin excretion rate (CMO:0000757)	2	80396178	220931218	Rat
12879837	Am2	Aortic mass QTL 2		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	2	154723085	199723085	Rat
12879838	Cm86	Cardiac mass QTL 86		0.002	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	2	154723085	199723085	Rat
1302793	Bw16	Body weight QTL 16	5	0.0001	body mass (VT:0001259)	body weight (CMO:0000012)	2	159440891	205135267	Rat
12879839	Cm85	Cardiac mass QTL 85		0.001	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	2	154723085	199723085	Rat
2317752	Glom23	Glomerulus QTL 23	3.6		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	2	196140964	251540988	Rat
1549833	Bp257	Blood pressure QTL 257		0.003	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	170652929	215652929	Rat
1358900	Bw48	Body weight QTL 48	4.88		body mass (VT:0001259)	body weight (CMO:0000012)	2	159440891	220931218	Rat
4889834	Pur24	Proteinuria QTL 24	5.8	0.014	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	2	171994826	205135428	Rat
1359031	Bp275	Blood pressure QTL 275			arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	2	188565047	233565047	Rat
1581499	Esta2	Estrogen-induced thymic atrophy QTL 2			thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	2	192287802	229609668	Rat
1331760	Bp206	Blood pressure QTL 206	3.62454		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	4265106	205135428	Rat
12879840	Bw179	Body weight QTL 179		0.005	body mass (VT:0001259)	body weight (CMO:0000012)	2	154723085	199723085	Rat
9589044	Scfw1	Subcutaneous fat weight QTL 1	5.8	0.001	subcutaneous adipose mass (VT:1000472)	abdominal subcutaneous fat pad weight (CMO:0002069)	2	184856304	229856304	Rat
8694435	Bw166	Body weight QTL 166	14.08	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	2	184856304	229856304	Rat
2301966	Bp322	Blood pressure QTL 322	3.58		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	144882354	205135428	Rat
1298083	Bp158	Blood pressure QTL 158	2.62		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	191709311	217961898	Rat
1298080	Bp163	Blood pressure QTL 163		0.02	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	67845182	205135428	Rat
1357991	Ael2	Aortic elastin QTL 2	4.2	0.000071	aorta elastin amount (VT:0003905)	aortic elastin	2	169227906	214227906	Rat
8662832	Vetf7	Vascular elastic tissue fragility QTL 7	3.5		aorta elastin amount (VT:0003905)	aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)	2	83400752	223709938	Rat
1331745	Bp203	Blood pressure QTL 203	4.377		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	192287802	221089121	Rat
1298085	Bp165	Blood pressure QTL 165		0.0006	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	44537979	205135428	Rat
8694194	Abfw1	Abdominal fat weight QTL 1	11.7	0.001	visceral adipose mass (VT:0010063)	abdominal fat pad weight to body weight ratio (CMO:0000095)	2	184856304	229856304	Rat
61366	Iddm3	Insulin dependent diabetes mellitus QTL 3	4.7		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	2	192287802	237287802	Rat
1578671	Bmd10	Bone mineral density QTL 10	5.4		femur mineral mass (VT:0010011)	compact volumetric bone mineral density (CMO:0001730)	2	175931416	220931416	Rat
1641891	Alcrsp17	Alcohol response QTL 17			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	2	151869660	251712708	Rat
724534	Uae6	Urinary albumin excretion QTL 6	10		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	2	80396034	220931416	Rat
61374	Edpm2	Estrogen-dependent pituitary mass QTL 2	4.42	0.86	pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	2	78269809	205135428	Rat
2300189	Bmd48	Bone mineral density QTL 48	5.8	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	2	182024327	227024327	Rat
8662843	Vetf9	Vascular elastic tissue fragility QTL 9	2.05		thoracic aorta molecular composition trait (VT:0010568)	aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)	2	159440760	228950743	Rat
2301408	Kidm36	Kidney mass QTL 36		0.002	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	2	184482291	229482291	Rat
1331794	Bp202	Blood pressure QTL 202	3.66819		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	143344967	251712708	Rat
71113	Cari2	Carrageenan-induced inflammation QTL 2	2.7	0.009	hypodermis integrity trait (VT:0010550)	inflammatory exudate volume (CMO:0001429)	2	143746578	205135428	Rat
1331805	Cm29	Cardiac mass QTL 29	3.50746		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	2	143344967	251712708	Rat
634308	Sach6	Saccharin preference QTL 6	4.9		taste sensitivity trait (VT:0001986)	saccharin intake volume to total fluid intake volume ratio (CMO:0001601)	2	114384617	215381366	Rat
1358917	Cm42	Cardiac mass QTL 42	2.82		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	2	27148328	206613235	Rat
724568	Uae13	Urinary albumin excretion QTL 13	4.4		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	2	145306936	212705578	Rat
1358913	Cm41	Cardiac mass QTL 41	2.73		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	2	27148328	206613235	Rat
1300165	Rf9	Renal function QTL 9	3.28		kidney glomerulus integrity trait (VT:0010546)	index of glomerular damage (CMO:0001135)	2	113746222	205135428	Rat
738013	Alc15	Alcohol consumption QTL 15	4.1	0.00022	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	2	186850607	231850607	Rat
61398	Bp50	Blood pressure QTL 50	4.4		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	192287802	237287802	Rat
631507	Bp105	Blood pressure QTL 105		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	114384617	215381366	Rat
1641925	Alcrsp2	Alcohol response QTL 2			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	2	151869660	223841096	Rat
1354609	Niddm62	Non-insulin dependent diabetes mellitus QTL 62	4.72	0.000006	insulin secretion trait (VT:0003564)	plasma insulin level (CMO:0000342)	2	117415288	205135428	Rat
61417	Cia10	Collagen induced arthritis QTL 10	3.4		joint integrity trait (VT:0010548)	experimental arthritis severity measurement (CMO:0001459)	2	182635347	227635347	Rat
1354622	Kidm16	Kidney mass QTL 16	3		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	2	83465462	225110681	Rat
631266	Bp132	Blood pressure QTL 132		0.0005	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	47856345	205135428	Rat
631522	Bp74	Blood pressure QTL 74		0.05	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	175008837	220008837	Rat
8694383	Bw158	Body weight QTL 158	7.69	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	2	184856304	229856304	Rat
7488927	Bp365	Blood pressure QTL 365		0.008	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	165453811	210453811	Rat
7488925	Bp364	Blood pressure QTL 364		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	163253030	208253030	Rat
2306901	Bp337	Blood pressure QTL 337		0.01	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	166372086	229820014	Rat
1354605	Rf48	Renal function QTL 48	2.9		blood creatinine amount (VT:0005328)	plasma creatinine level (CMO:0000537)	2	76328396	209350714	Rat

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

adipose tissue	alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	entire extraembryonic component	exocrine system	hemolymphoid system	hepatobiliary system	mesenchyme	mesoderm	musculoskeletal system	nervous system	pharyngeal arch	renal system	reproductive system	respiratory system	sensory system	visual system
12	43	5	134	3173	46	807	1	6	11	6	222	97	62	3171	2	72	308	803	6	6

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001433263	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001433264	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001433265	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NR_197347	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NR_197348	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_001077265	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_003749376	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_003753656	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039103823	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473952	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000002	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000022731 ⟹ ENSRNOP00000022731

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	2	196,163,275 - 196,181,349 (-)	Ensembl
mRatBN7.2 Ensembl	2	193,475,782 - 193,482,784 (-)	Ensembl
Rnor_6.0 Ensembl	2	208,616,603 - 208,623,314 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000049155 ⟹ ENSRNOP00000048012

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	2	196,163,275 - 196,181,604 (-)	Ensembl
mRatBN7.2 Ensembl	2	193,475,785 - 193,493,139 (-)	Ensembl
Rnor_6.0 Ensembl	2	208,616,589 - 208,633,945 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000122230 ⟹ ENSRNOP00000112252

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	2	196,163,275 - 196,181,604 (-)	Ensembl

RefSeq Acc Id:

NM_001433263 ⟹ NP_001420192

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Dahl_SR_JrHsd	2	195,744,536 - 195,761,922 (-)	NCBI
Lyon_Normotensive	2	195,983,742 - 196,001,124 (-)	NCBI
Lyon_Hypertensive	2	195,618,521 - 195,635,830 (-)	NCBI
F344_StmMcwi	2	195,731,953 - 195,749,262 (-)	NCBI

RefSeq Acc Id:

NM_001433264 ⟹ NP_001420193

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Dahl_SR_JrHsd	2	195,744,536 - 195,751,271 (-)	NCBI
Lyon_Normotensive	2	195,983,742 - 195,990,477 (-)	NCBI
Lyon_Hypertensive	2	195,618,521 - 195,625,264 (-)	NCBI
F344_StmMcwi	2	195,731,953 - 195,738,696 (-)	NCBI

RefSeq Acc Id:

NM_001433265 ⟹ NP_001420194

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Dahl_SR_JrHsd	2	195,744,536 - 195,761,922 (-)	NCBI
Lyon_Normotensive	2	195,983,742 - 196,001,124 (-)	NCBI
Lyon_Hypertensive	2	195,618,521 - 195,635,830 (-)	NCBI
F344_StmMcwi	2	195,731,953 - 195,749,262 (-)	NCBI

RefSeq Acc Id:

NR_197347

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Dahl_SR_JrHsd	2	195,744,536 - 195,761,922 (-)	NCBI
Lyon_Normotensive	2	195,983,742 - 196,001,124 (-)	NCBI
Lyon_Hypertensive	2	195,618,521 - 195,635,830 (-)	NCBI
F344_StmMcwi	2	195,731,953 - 195,749,262 (-)	NCBI

RefSeq Acc Id:

NR_197348

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Dahl_SR_JrHsd	2	195,744,536 - 195,761,922 (-)	NCBI
Lyon_Normotensive	2	195,983,742 - 196,001,124 (-)	NCBI
Lyon_Hypertensive	2	195,618,521 - 195,635,830 (-)	NCBI
F344_StmMcwi	2	195,731,953 - 195,749,262 (-)	NCBI

RefSeq Acc Id:

XM_001077265 ⟹ XP_001077265

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	2	196,164,103 - 196,170,884 (-)	NCBI
mRatBN7.2	2	193,475,785 - 193,482,538 (-)	NCBI
Rnor_6.0	2	208,616,592 - 208,623,337 (-)	NCBI
Rnor_5.0	2	228,037,805 - 228,055,061 (-)	NCBI
RGSC_v3.4	2	201,247,609 - 201,254,234 (-)	RGD

Sequence:

show sequence

CGTGTTCCCTTGGCAACGTAGTACACAGCGCTAATCCTAGCACCCTGCAGGATGTGCTTCAGCA
GAGTAGATGAAGAGAGTAGCATAGGCCTACAGAGCAAACAGCAGAAGGGTAAGAAGAGCAAGAG
AGATGAACACAGAGGAAGTACCGGTTGCTCCCCCGCTCCGTGGAGTTACACCTGCTTTACAGTG
GAAGGTGAATAAATACTCCTTTGGAACACGTCAAGCGAGGAAACTCTTTCCTCACTACCATCCC
CCAACCTGGCTGGGGAACACTTATCTCCCTCTTAGGGGACTGCCCCACACAGGCCCTGGGTGTT
ATGCAGCAACAGATTGGAATGGTTTAGCATATAACCTATCAAAAGTCCCAACCAGTACAAAAGG
CTATGCTATTGGAGCCAGGACATCTGTGAGGTTTAAGCCAATCAACAAGGATGTGACACCATAC
CCGGGAATGTATCAGAAAGTTGATATTTCAAGTGAAAAACACAAAAAATGCTTTGCTCCTTTTA
ACATCTTGATGCCTCGATTTAAGAGCGATGTAAAGGGCGATTCTTACCCTGGCCCTGGGACATA
CAATCCTAAGAACAATTCAGTCCCAAAAGTTAGTTGGCCAATGAAATTTGGATCTCCAGACTGG
TCTCAGGTCCCATGTCTAGAGAAAAGGACTCTGAAAGCTGAGCTGTCCACAGACAAGGACTTTA
GAAAGCATCGGAACCGTGTGGCCTACTTTAGCCTGTATTACAAATGAGAAGTAGGCACTGTCTT
CATGTGTTCTTGACCACAGAGTCTCCAGAATTGAGGACATAGCTGCTCTTGTATTTCTGTGTTC
CTGGGCCCTCTTGTCTGCCTATTTGGTGTCCAGGAAGGGACAAGGGTCTCATAGTCACGTCGCC
CTCCAAATAAATAAAGGCTGGTCCAGAATGTTT

hide sequence

RefSeq Acc Id:

XM_003749376 ⟹ XP_003749424

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	2	196,164,103 - 196,181,462 (-)	NCBI
mRatBN7.2	2	193,475,785 - 193,493,092 (-)	NCBI
Rnor_6.0	2	208,616,592 - 208,633,961 (-)	NCBI
Rnor_5.0	2	228,037,805 - 228,055,061 (-)	NCBI

Sequence:

show sequence

AGTCTTGGGAACACCCTTCACTTTCTTGCTTAAAGCCCATCAAGAAAGTAGTGGCTCATGCACA
CAGAAAATGAGGAGGAACTCGGGCCTCCTGAAAGTATCCATGCAATGCAGTTACTATTCAAAAC
TCTTGAGGCATCTGAAACGCCTCAGATAGAACAACCTGACAAGACCAAAGAGAATGAATCCCTA
CGACGAAATGAACATCATGCCCTATGGGACATCACTCATGGGAAGGTGAATAAATACTCCTTTG
GAACACGTCAAGCGAGGAAACTCTTTCCTCACTACCATCCCCCAACCTGGCTGGGGAACACTTA
TCTCCCTCTTAGGGGACTGCCCCACACAGGCCCTGGGTGTTATGCAGCAACAGATTGGAATGGT
TTAGCATATAACCTATCAAAAGTCCCAACCAGTACAAAAGGCTATGCTATTGGAGCCAGGACAT
CTGTGAGGTTTAAGCCAATCAACAAGGATGTGACACCATACCCGGGAATGTATCAGAAAGTTGA
TATTTCAAGTGAAAAACACAAAAAATGCTTTGCTCCTTTTAACATCTTGATGCCTCGATTTAAG
AGCGATGTAAAGGGCGATTCTTACCCTGGCCCTGGGACATACAATCCTAAGAACAATTCAGTCC
CAAAAGTTAGTTGGCCAATGAAATTTGGATCTCCAGACTGGTCTCAGGTCCCATGTCTAGAGAA
AAGGACTCTGAAAGCTGAGCTGTCCACAGACAAGGACTTTAGAAAGCATCGGAACCGTGTGGCC
TACTTTAGCCTGTATTACAAATGAGAAGTAGGCACTGTCTTCATGTGTTCTTGACCACAGAGTC
TCCAGAATTGAGGACATAGCTGCTCTTGTATTTCTGTGTTCCTGGGCCCTCTTGTCTGCCTATT
TGGTGTCCAGGAAGGGACAAGGGTCTCATAGTCACGTCGCCCTCCAAATAAATAAAGGCTGGTC
CAGAATGTTT

hide sequence

RefSeq Acc Id:

XM_039103823 ⟹ XP_038959751

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	2	196,164,103 - 196,181,466 (-)	NCBI
mRatBN7.2	2	193,475,785 - 193,493,049 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001420192	(Get FASTA)	NCBI Sequence Viewer
	NP_001420193	(Get FASTA)	NCBI Sequence Viewer
	NP_001420194	(Get FASTA)	NCBI Sequence Viewer
	XP_001077265	(Get FASTA)	NCBI Sequence Viewer
	XP_003749424	(Get FASTA)	NCBI Sequence Viewer
	XP_038959751	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL81831	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000022731
	ENSRNOP00000022731.2
	ENSRNOP00000048012
	ENSRNOP00000048012.2
	ENSRNOP00000112252.1

RefSeq Acc Id:

XP_001077265 ⟸ XM_001077265

- Peptide Label:

isoform X2

- Sequence:

show sequence

MNTEEVPVAPPLRGVTPALQWKVNKYSFGTRQARKLFPHYHPPTWLGNTYLPLRGLPHTGPGCY
AATDWNGLAYNLSKVPTSTKGYAIGARTSVRFKPINKDVTPYPGMYQKVDISSEKHKKCFAPFN
ILMPRFKSDVKGDSYPGPGTYNPKNNSVPKVSWPMKFGSPDWSQVPCLEKRTLKAELSTDKDFR
KHRNRVAYFSLYYK

hide sequence

RefSeq Acc Id:

XP_003749424 ⟸ XM_003749376

- Peptide Label:

isoform X1

- Sequence:

show sequence

MHTENEEELGPPESIHAMQLLFKTLEASETPQIEQPDKTKENESLRRNEHHALWDITHGKVNKY
SFGTRQARKLFPHYHPPTWLGNTYLPLRGLPHTGPGCYAATDWNGLAYNLSKVPTSTKGYAIGA
RTSVRFKPINKDVTPYPGMYQKVDISSEKHKKCFAPFNILMPRFKSDVKGDSYPGPGTYNPKNN
SVPKVSWPMKFGSPDWSQVPCLEKRTLKAELSTDKDFRKHRNRVAYFSLYYK

hide sequence

Ensembl Acc Id:

ENSRNOP00000022731 ⟸ ENSRNOT00000022731

Ensembl Acc Id:

ENSRNOP00000048012 ⟸ ENSRNOT00000049155

RefSeq Acc Id:	XP_038959751 ⟸ XM_039103823
- Peptide Label:	isoform X3

Ensembl Acc Id:

ENSRNOP00000112252 ⟸ ENSRNOT00000122230

RefSeq Acc Id:

NP_001420194 ⟸ NM_001433265

RefSeq Acc Id:	NP_001420192 ⟸ NM_001433263
- UniProtKB:	D3ZDE7 (UniProtKB/TrEMBL)

RefSeq Acc Id:	NP_001420193 ⟸ NM_001433264
- UniProtKB:	D3ZM79 (UniProtKB/TrEMBL)

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D3ZDE7-F1-model_v2	AlphaFold	D3ZDE7	1-244	view protein structure

Transcriptome

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

Promoters

RGD ID:

13691651

Promoter ID:

EPDNEW_R2174

Type:

multiple initiation site

Name:

Pifo_1

Description:

primary cilia formation

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	2	208,623,318 - 208,623,378	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1586282	AgrOrtholog
BioCyc Gene	G2FUF-51715	BioCyc
Ensembl Genes	ENSRNOG00000016842	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000022731	ENTREZGENE
	ENSRNOT00000022731.7	UniProtKB/TrEMBL
	ENSRNOT00000049155	ENTREZGENE
	ENSRNOT00000049155.7	UniProtKB/TrEMBL
	ENSRNOT00000122230.1	UniProtKB/TrEMBL
InterPro	Pitchfork	UniProtKB/TrEMBL
	SHIPPO-rpt	UniProtKB/TrEMBL
KEGG Report	rno:691223	UniProtKB/TrEMBL
NCBI Gene	691223	ENTREZGENE
PANTHER	PROTEIN PITCHFORK	UniProtKB/TrEMBL
	PTHR31508	UniProtKB/TrEMBL
Pfam	SHIPPO-rpt	UniProtKB/TrEMBL
PhenoGen	Cimap3	PhenoGen
RatGTEx	ENSRNOG00000016842	RatGTEx
UniProt	A0ABK0LMQ0_RAT	UniProtKB/TrEMBL
	D3ZDE7	ENTREZGENE, UniProtKB/TrEMBL
	D3ZM79	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2023-05-12	Cimap3	ciliary microtubule associated protein 3	Pifo	primary cilia formation	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2013-05-24	Pifo	primary cilia formation	LOC100365876	hypothetical protein LOC100365876	Data merged from RGD:2318212	1643240	APPROVED
2012-10-17	Pifo	primary cilia formation	LOC691223	hypothetical protein LOC691223	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2010-05-05	LOC100365876	hypothetical protein LOC100365876			Symbol and Name status set to provisional	70820	PROVISIONAL
2008-01-09	LOC691223	hypothetical protein LOC691223	LOC684266	hypothetical protein LOC684266	Data merged from RGD:1592681	1643240	APPROVED
2006-11-20	LOC684266	hypothetical protein LOC684266			Symbol and Name status set to provisional	70820	PROVISIONAL
2006-11-19	LOC691223	hypothetical protein LOC691223			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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