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Gene: Ccdc60 (coiled-coil domain containing 60) Rattus norvegicus

Analyze

Symbol:

Ccdc60

Name:

coiled-coil domain containing 60

RGD ID:

1564283

Description:

Orthologous to human CCDC60 (coiled-coil domain containing 60); INTERACTS WITH atrazine; bisphenol A; C60 fullerene.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

coiled-coil domain-containing protein 60; hypothetical LOC498201; LOC498190; MGC124983; similar to hypothetical protein C130098D09

RGD Orthologs

Alliance Orthologs

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):	CCDC60 (coiled-coil domain containing 60)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Ccdc60 (coiled-coil domain containing 60)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Ccdc60 (coiled-coil domain containing 60)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CCDC60 (coiled-coil domain containing 60)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CCDC60 (coiled-coil domain containing 60)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Ccdc60 (coiled-coil domain containing 60)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CCDC60 (coiled-coil domain containing 60)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	CCDC60 (coiled-coil domain containing 60)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Ccdc60 (coiled-coil domain containing 60)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Ccdc60 (coiled-coil domain containing 60)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	CCDC60 (coiled-coil domain containing 60)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Ccdc60 (coiled-coil domain containing 60)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	ccdc60	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

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	12	45,975,394 - 46,141,078 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	12	45,975,403 - 46,141,132 (+)	Ensembl				GRCr8
mRatBN7.2	12	40,314,687 - 40,480,338 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	12	40,314,713 - 40,480,225 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	12	41,489,992 - 41,655,003 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	12	42,103,831 - 42,268,847 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	12	41,164,217 - 41,329,224 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	12	46,042,422 - 46,206,748 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	12	46,042,413 - 46,206,747 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	12	47,854,169 - 48,016,733 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	12	41,556,056 - 41,717,332 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	12	41,950,536 - 42,110,702 (+)	NCBI		Celera
Cytogenetic Map	12	q16	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2,4-trichloro-5-(2,5-dichlorophenyl)benzene (ISO)

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

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

2,4,4'-trichlorobiphenyl (ISO)

4,4'-sulfonyldiphenol (ISO)

actinomycin D (ISO)

arsane (ISO)

arsenic atom (ISO)

atrazine (EXP,ISO)

benzo[a]pyrene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

Butylbenzyl phthalate (ISO)

C60 fullerene (EXP)

cadmium dichloride (EXP,ISO)

CGP 52608 (ISO)

doxorubicin (ISO)

fulvestrant (ISO)

methoxychlor (EXP)

monosodium L-glutamate (ISO)

N-methyl-4-phenylpyridinium (EXP)

nitrofen (EXP)

Nutlin-3 (ISO)

PCB138 (ISO)

sodium arsenite (ISO)

titanium dioxide (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Molecular Function

protein binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
3.	Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Additional References at PubMed

PMID:15489334

Genomics

Comparative Map Data

Ccdc60
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	12	45,975,394 - 46,141,078 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	12	45,975,403 - 46,141,132 (+)	Ensembl				GRCr8
mRatBN7.2	12	40,314,687 - 40,480,338 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	12	40,314,713 - 40,480,225 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	12	41,489,992 - 41,655,003 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	12	42,103,831 - 42,268,847 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	12	41,164,217 - 41,329,224 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	12	46,042,422 - 46,206,748 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	12	46,042,413 - 46,206,747 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	12	47,854,169 - 48,016,733 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	12	41,556,056 - 41,717,332 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	12	41,950,536 - 42,110,702 (+)	NCBI		Celera
Cytogenetic Map	12	q16	NCBI

CCDC60
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	12	119,334,729 - 119,541,040 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	12	119,334,703 - 119,541,047 (+)	Ensembl			hg38	GRCh38
GRCh37	12	119,772,534 - 119,978,845 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	12	118,256,900 - 118,463,235 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Celera	12	119,405,646 - 119,611,925 (+)	NCBI		Celera
Cytogenetic Map	12	q24.23	NCBI
HuRef	12	116,780,698 - 116,987,081 (+)	NCBI		HuRef
CHM1_1	12	119,740,334 - 119,946,509 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	12	119,322,154 - 119,528,383 (+)	NCBI		T2T-CHM13v2.0

Ccdc60
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	116,263,640 - 116,427,059 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	5	116,262,700 - 116,427,044 (-)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	5	116,125,581 - 116,289,000 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	116,124,641 - 116,288,985 (-)	Ensembl			mm10	GRCm38
MGSCv37	5	116,575,590 - 116,738,994 (-)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	5	116,386,580 - 116,549,984 (-)	NCBI		MGSCv36	mm8
Celera	5	113,226,026 - 113,384,492 (-)	NCBI		Celera
Cytogenetic Map	5	F	NCBI
cM Map	5	56.12	NCBI

Ccdc60
(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_004955455	11,998,249 - 12,164,033 (-)	Ensembl
ChiLan1.0	NW_004955455	11,998,223 - 12,163,986 (-)	NCBI	ChiLan1.0	ChiLan1.0

CCDC60
(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	10	127,401,021 - 127,605,430 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	12	127,397,399 - 127,601,808 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	12	116,914,726 - 117,119,097 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	12	120,293,038 - 120,497,161 (+)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	12	120,293,045 - 120,497,161 (+)	Ensembl			panPan2	panpan1.1

CCDC60
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	26	15,455,826 - 15,641,288 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	26	15,456,004 - 15,607,097 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	26	15,460,676 - 15,632,782 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	26	15,723,671 - 15,896,232 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	26	15,723,843 - 15,896,277 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	26	15,693,509 - 15,865,572 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	26	15,761,307 - 15,933,515 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	26	15,802,752 - 15,974,704 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Ccdc60
(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_024405118	146,754,396 - 146,894,145 (-)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936668	1,253,538 - 1,392,577 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CCDC60
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	14	33,327,428 - 33,514,739 (-)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	14	33,326,296 - 33,514,766 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

CCDC60
(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	11	114,677,048 - 114,882,556 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	11	114,809,597 - 114,882,223 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666037	130,222,454 - 130,426,311 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Ccdc60
(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_004624747	14,034,020 - 14,248,564 (-)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624747	14,034,094 - 14,088,830 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Ccdc60
(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	16	37,545,818 - 37,703,992 (+)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Ccdc60
835 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	42
Count of miRNA genes:	39
Interacting mature miRNAs:	42
Transcripts:	ENSRNOT00000046882
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 (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
631560	Apr1	Acute phase response QTL 1	6.1		orosomucoid 1 amount (VT:0010541)	plasma orosomucoid 1 level (CMO:0001467)	12	24805022	52308831	Rat
70213	Niddm27	Non-insulin dependent diabetes mellitus QTL 27	3.72		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	12	11200494	52308831	Rat
8552964	Pigfal17	Plasma insulin-like growth factor 1 level QTL 17	3.5		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	11200494	52308831	Rat
8693635	Alc28	Alcohol consumption QTL 28	2.7	0.439	drinking behavior trait (VT:0001422)	calculated ethanol drink intake rate (CMO:0001615)	12	28717718	50386405	Rat
7411641	Foco19	Food consumption QTL 19	27.7	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	11200494	52308831	Rat
7411643	Foco20	Food consumption QTL 20		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	25989355	52308831	Rat
5684888	Pia42	Pristane induced arthritis QTL 42			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	3489416	48489416	Rat
1641928	Alcrsp5	Alcohol response QTL 5			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	12	18473041	52308831	Rat
1300162	Bp188	Blood pressure QTL 188	3.19		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	12	37764145	51558799	Rat
8552912	Pigfal6	Plasma insulin-like growth factor 1 level QTL 6	5		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	11200497	52308831	Rat
1549829	Scl48	Serum cholesterol level QTL 48	5		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	12	15264248	52308831	Rat
10059594	Kidm46	Kidney mass QTL 46	3.79	0.025	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	12	11743528	52308831	Rat
8552918	Pigfal7	Plasma insulin-like growth factor 1 level QTL 7			blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	11200494	52308831	Rat
1600386	Calcic2	Intracellular calcium level QTL 2		0.001	platelet physiology trait (VT:0005464)	platelet intracellular calcium level (CMO:0000922)	12	33700432	46784661	Rat
61404	Bw120	Body weight QTL 120	5.1		body mass (VT:0001259)	body mass index (BMI) (CMO:0000105)	12	17464979	46784661	Rat
1556747	Calcic1	Intracellular calcium level QTL 1		3.6	platelet calcium amount (VT:0010500)	platelet intracellular calcium level (CMO:0000922)	12	33700432	46784661	Rat
1300175	Cm5	Cardiac mass QTL 5	3.78		heart mass (VT:0007028)	heart left ventricle weight to body weight ratio (CMO:0000530)	12	33700432	51558799	Rat
1331786	Kidm11	Kidney mass QTL 11	3.571		kidney mass (VT:0002707)	right kidney wet weight (CMO:0000082)	12	16187438	52308831	Rat
8693658	Alc33	Alcohol consumption QTL 33	2.1	0.68	drinking behavior trait (VT:0001422)	calculated ethanol drink intake rate (CMO:0001615)	12	28717718	49212240	Rat
2293699	Bss49	Bone structure and strength QTL 49	5.61	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra trabecular cross-sectional area (CMO:0001692)	12	16135029	52308831	Rat
1331761	Bp218	Blood pressure QTL 218	2.973		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	12	16187438	51213550	Rat
1331763	Wbc2	White blood cell count QTL 2	3.162		leukocyte quantity (VT:0000217)	total white blood cell count (CMO:0000365)	12	11200494	52308831	Rat
7411547	Bw129	Body weight QTL 129		0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	6	11200494	52308831	Rat
1298081	Cia25	Collagen induced arthritis QTL 25	4.7		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	2747694	47747694	Rat
2303569	Gluco44	Glucose level QTL 44	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	12	18473041	52308831	Rat
2303575	Insul14	Insulin level QTL 14	4		blood insulin amount (VT:0001560)	blood insulin level (CMO:0000349)	12	3087180	48087180	Rat
7411588	Foco6	Food consumption QTL 6		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	11200494	52308831	Rat
7243862	Mcs30	Mammary carcinoma susceptibility QTL 30	8.62		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	12	5633306	50633306	Rat
2300186	Bmd59	Bone mineral density QTL 59	7.1	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	12	16135029	52308831	Rat
7411597	Foco10	Food consumption QTL 10		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	11200494	52308831	Rat
631543	Bp83	Blood pressure QTL 83	5.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	12	44139558	52308831	Rat

Markers in Region

D12Got229

Rat Assembly	Chr	Position (strand)	Source	JBrowse
GRCr8	12	45,980,467 - 45,980,686 (+)	Marker Load Pipeline
mRatBN7.2	12	40,319,726 - 40,319,944 (+)	MAPPER	mRatBN7.2
Rnor_6.0	12	46,047,460 - 46,047,677	NCBI	Rnor6.0
Rnor_5.0	12	47,859,205 - 47,859,422	UniSTS	Rnor5.0
RGSC_v3.4	12	41,561,102 - 41,561,319	UniSTS	RGSC3.4
Celera	12	41,955,555 - 41,955,772	UniSTS
Cytogenetic Map	12	q16	UniSTS

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

appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
11	5	112	19	30	9	3	9	6	64	24	7	97	23	58	21	6	6

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001034945	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001439835	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006249464	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC103639	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000012	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000046882 ⟹ ENSRNOP00000048419

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	12	45,975,403 - 46,141,132 (+)	Ensembl
mRatBN7.2 Ensembl	12	40,314,713 - 40,480,225 (+)	Ensembl
Rnor_6.0 Ensembl	12	46,042,413 - 46,206,747 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000098883 ⟹ ENSRNOP00000092822

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	12	45,975,448 - 46,140,966 (+)	Ensembl
mRatBN7.2 Ensembl	12	40,314,713 - 40,480,225 (+)	Ensembl

RefSeq Acc Id:

NM_001034945 ⟹ NP_001030117

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	45,975,448 - 46,140,966 (+)	NCBI
mRatBN7.2	12	40,314,713 - 40,480,226 (+)	NCBI
Rnor_6.0	12	46,042,440 - 46,206,636 (+)	NCBI
Rnor_5.0	12	47,854,169 - 48,016,733 (+)	NCBI
RGSC_v3.4	12	41,556,056 - 41,717,332 (+)	RGD
Celera	12	41,950,536 - 42,110,702 (+)	RGD

Sequence:

show sequence

GGCCGAGCCCCATGGTGGGGCCCGCCTTAGTCCCTGGTCTCGCTGGCCGAGGGTGGGACTTTTT
TTCTGTAGAGTTTTATTTTTTTTTCAATTTACATTTTATTTTGCGTATAGGAGAAACATATCTC
CTCCTTTAAAATAGGGAAGACTTATAAAACTGATTTTGTGCGAGTTAAATAGTCTCAGGTTTGC
CTGCTCGGGCCTAGTCGGACTTCTTTACCCAGATGCTCAGCTTTAAAACAAGTCCTCGGAGAGA
AACCTCTTTGCAGTCCCTGAACTTGGGACTTGGGGACCTGGTAGAACTTTCTGGACTGTTTCAC
ACCAGTGAGTGTTGAAGGCAAGATTCTGGGAAAAGCAACAAAAAGCCTTTCAGTGGAGGTACCG
GCTTAAAGACTGAAGTTATTTTTTTCCTCAAGATGACCAAAGCGCCAGCCACCAAAAAGTTACA
AAGAGTCCCCAGCAAGGCCATTTGGCTCTTTTCTGGCTCAGATCAGCTGACCCAGGCCTCAGAC
AAGACGGTGAAGAGCACCAAGTCTATGGACAAGGAGATAGTAAACCTCAAAAAGGATCTCATCC
GAAGCCGCTTCCTGATCCAGTGTGTGAAGATAGGCCGTGGCTACTTCACCATGCTGCAAGAGGA
AACTGCCTTTAAAAAGCATCAGCAGCATCTCAAGAAGCTGCAGGAAGAAGAGTTAAACAAGTTC
CAGCCAGCCAAGAAGTACTCGGACATCCAATGCAGAGACACTCTGCTGACCACCTACGAATACG
AAAAGATGAAGAAGTTGGAGGCCGGCATCATCATCCGCCCGTTCACACCCATCCACAACTGTAT
CATGGCGCCCTCCCTGCCTGAGTCTCACGTGGATCCCCTCTTCCGCCAGCTATGTGCTCTCCAC
TGGCTTCTAGAGGCCCTGACTATCGACCACACCCACCACACCATGAGGCCTGTGATTGCCTGTT
GGAACCCCAAGGACCCCGGTGGCAGCAAGAGCACGATAAAGAAGATTAACAAGGACAAGTCCAT
GGGGCAGAGGTGGGATCACTTCGTCACGGCACCCAAGACCAAGAAATTCAAAGCCCCTGCCATC
CGCAGCTTAGCCACCCGAAAACCCAGCAGGCGAGGCTCCGCCCTCAGCCTGACTCGGACCAGTG
GGGGCTCTTCTCCCCAGAGCAGCATGATGTCAGTGAACCCCAGCTCTGACGAGCCCACCGGCAG
CAAAGACATCGAAGACAACGAGTCATCCTCCACTAAGCCGGAAGAGGAAGTTCTCCACTTCAGC
TTACAGAAGCTCCTGGAGATGGTCCGGGAAGACGCCCGAAGAACCATCCTGATGGAGACCGAGA
TGCAAAAGAAAGCCCCCAGCATCCTGTCTTTAGTCAAGCAAGTCAAGAGTGACTATGGGTGGAA
GGACTGGCAGACCACACACAAGTCCAGTGAGCGGTCCAGCACTACGAGTGGAGAAAGCCACATC
CAGGTGACCCAGAAGAAGTCAAAGGGCCGAGCTAACCGGGACATCATCTATTGCAAGACAGGGA
TCTGTAACACCATGCGAGCCAAGTTTTACAGCGTAGCCCAGGAGGCTGGCTTCTGCCTGCAGGA
CAAGATGGAAATCCTCAAGAAGCGCCAAGAGGAACGAGGCCTCCAGAAGTTCCACTCCTTTATT
GTCACCTCGAACTTCCAGAAGGACATAGCAAAGATGAGGCACCAGGTCTCGATGGTGAAGGGAG
ATGCGGAGGAGATGGCCGACCACTGGTACTTTGATCTGCTGTCCAAACTCCCAGAGGATCTGAA
GAGCTTCCGGCCGGCCAAAAAGATCCTAACAAAGCTGCAGAAGTTTGGTGAGAACCTGGACCTC
AGGATCCGGCCCCACGTCCTCCTGAAGGTGCTCCAGGACCTACGGATCTGGGAGCTGTGCTCCC
CAGACATTGCAGTGGCCATTGAGTTTGTGAGAGAACACATCATTCACATGCCGCAGGAGGATTA
CGTCAACTGGCTGCAGAGCAGGGTCAACATGCCCATCCGGCACCGCCCCATCCTGACATAGAGG
GGCCGGTCCCCGTGGAGGAGGGCAAGCCAACGCCATGTCCCTAAGCCCAGCCTGTGCCATAGCC
TCCTCTCCTCTCTCACGGACGCACGGCATGGAGCAGTGAGATGGGTTGAAGACACTTTTAACAT
TAAAGTTGTTGGAGAGGGTGGTCCCAGGTGGCCCTCCCCTCCCTCACCAAAAAAAAAAAAAAAA
AAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_006249464 ⟹ XP_006249526

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	45,975,394 - 46,141,078 (+)	NCBI
mRatBN7.2	12	40,314,687 - 40,480,338 (+)	NCBI
Rnor_6.0	12	46,042,422 - 46,206,748 (+)	NCBI
Rnor_5.0	12	47,854,169 - 48,016,733 (+)	NCBI

Sequence:

show sequence

GGCAGTTTTAAGCCCCAAGGCCGAGCCCCATGGTGGGGCCCGCCTTAGTCCCTGGTCTCGCTGG
CCGAGGGTGGGACTTTTTTCTGTAGAGTTTTATTTTTTTTTCAATTTACATTTTATTTTGCGTA
TAGGAGAAACATATCTCCTCCTTTAAAATAGGGAAGACTTATAAAACTGATTTTGTGCGAGTTA
AATAGTCTCAGGTTTGCCTGCTCGGGCCTAGTCGGACTTCTTTACCCAGATGCTCAGCTTTAAA
ACAAGTCCTCGGAGAGAAACCTCTTTGCAGTCCCTGAACTTGGGACTTGGGGACCTGGTAGAAC
TTTCTGGACTGTTTCACACCAGTGAGTGTTGAAGGCAAGATTCTGGGAAAAGCAACAAAAAGCC
TTTCAGTGGAGGTACCGGCTTAAAGACTGAAGTTATTTTTTTCCTCAAGATGACCAAAGCGCCA
GCCACCAAAAAGTTACAAAGAGTCCCCAGCAAGGCCATTTGGCTCTTTTCTGGCTCAGATCAGC
TGACCCAGGCCTCAGACAAGACGGTGAAGAGCACCAAGTCTATGGACAAGGAGATAGTAAACCT
CAAAAAGGATCTCATCCGAAGCCGCTTCCTGATCCAGTGTGTGAAGATAGGCCGTGGCTACTTC
ACCATGCTGCAAGAGGAAACTGCCTTTAAAAAGCATCAGCAGCATCTCAAGAAGCTGCAGGAAG
AAGAGTTAAACAAGTTCCAGCCAGCCAAGAAGTACTCGGACATCCAATGCAGAGACACTCTGCT
GACCACCTACGAATACGAAAAGATGAAGAAGTTGGAGGCCGGCATCATCATCCGCCCGTTCACA
CCCATCCACAACTGTATCATGGCGCCCTCCCTGCCTGAGTCTCACGTGGATCCCCTCTTCCGCC
AGCTATGTGCTCTCCACTGGCTTCTAGAGGCCCTGACTATCGACCACACCCACCACACCATGAG
GCCTGTGATTGCCTGTTGGAACCCCAAGGACCCCGGTGGCAGCAAGAGCACGATAAAGAAGATT
AACAAGGACAAGTCCATGGGGCAGAGGTGGGATCACTTCGTCACGGCACCCAAGACCAAGAAAT
TCAAAGCCCCTGCCATCCGCAGCTTAGCCACCCGAAAACCCAGCAGGCGAGGCTCCGCCCTCAG
CCTGACTCGGACCAGTGGGGGCTCTTCTCCCCAGAGCAGCATGATGTCAGTGAACCCCAGCTCT
GACGAGCCCACCGGCAGCAAAGACATCGAAGACAACGAGTCATCCTCCACTAAGCCGGAAGAGG
AAGTTCTCCACTTCAGCTTACAGAAGCTCCTGGAGATGGTCCGGGAAGACGCCCGAAGAACCAT
CCTGATGGAGACCGAGATGCAAAAGAAAGCCCCCAGCATCCTGTCTTTAGTCAAGCAAGTCAAG
AGTGACTATGGGTGGAAGGACTGGCAGACCACACACAAGTCCAGTGAGCGGTCCAGCACTACGA
GTGGAGAAAGCCACATCCAGGTGACCCAGAAGAAGTCAAAGGGCAGCCGAGCTAACCGGGACAT
CATCTATTGCAAGACAGGGATCTGTAACACCATGCGAGCCAAGTTTTACAGCGTAGCCCAGGAG
GCTGGCTTCTGCCTGCAGGACAAGATGGAAATCCTCAAGAAGCGCCAAGAGGAACGAGGCCTCC
AGAAGTTCCACTCCTTTATTGTCACCTCGAACTTCCAGAAGGACATAGCAAAGATGAGGCACCA
GGTCTCGATGGTGAAGGGAGATGCGGAGGAGATGGCCGACCACTGGTACTTTGATCTGCTGTCC
AAACTCCCAGAGGATCTGAAGAGCTTCCGGCCGGCCAAAAAGATCCTAACAAAGCTGCAGAAGT
TTGGTGAGAACCTGGACCTCAGGATCCGGCCCCACGTCCTCCTGAAGGTGCTCCAGGACCTACG
GATCTGGGAGCTGTGCTCCCCAGACATTGCAGTGGCCATTGAGTTTGTGAGAGAACACATCATT
CACATGCCGCAGGAGGATTACGTCAACTGGCTGCAGAGCAGGGTCAACATGCCCATCCGGCACC
GCCCCATCCTGACATAGAGGGGCCGGTCCCCGTGGAGGAGGGCAAGCCAACGCCATGTCCCTAA
GCCCAGCCTGTGCCATAGCCTCCTCTCCTCTCTCACGGACGCACGGCATGGAGCAGTGAGATGG
GTTGAAGACACTTTTAACATTAAAGTTGTTGGAGAGGGTGGTCCCAGGTGGCCCTCCCCTCCCT
CACCACGTTCCCTGTCTCCGCTCACTGTTCAAAGCCGACTCTGCCTTCTCTCCCAGACTCCATC
ACCATCCCTCTTCCCCGAAAACCCTGGATAATAAAACTAAGCTGGATGTCTGA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001030117	(Get FASTA)	NCBI Sequence Viewer
	NP_001426764	(Get FASTA)	NCBI Sequence Viewer
	XP_006249526	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI03640	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000048419
	ENSRNOP00000092822
GenBank Protein	Q3ZAV0	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_001030117 ⟸ NM_001034945

- UniProtKB:

Q3ZAV0 (UniProtKB/Swiss-Prot), A0A8I6AHS0 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MTKAPATKKLQRVPSKAIWLFSGSDQLTQASDKTVKSTKSMDKEIVNLKKDLIRSRFLIQCVKI
GRGYFTMLQEETAFKKHQQHLKKLQEEELNKFQPAKKYSDIQCRDTLLTTYEYEKMKKLEAGII
IRPFTPIHNCIMAPSLPESHVDPLFRQLCALHWLLEALTIDHTHHTMRPVIACWNPKDPGGSKS
TIKKINKDKSMGQRWDHFVTAPKTKKFKAPAIRSLATRKPSRRGSALSLTRTSGGSSPQSSMMS
VNPSSDEPTGSKDIEDNESSSTKPEEEVLHFSLQKLLEMVREDARRTILMETEMQKKAPSILSL
VKQVKSDYGWKDWQTTHKSSERSSTTSGESHIQVTQKKSKGRANRDIIYCKTGICNTMRAKFYS
VAQEAGFCLQDKMEILKKRQEERGLQKFHSFIVTSNFQKDIAKMRHQVSMVKGDAEEMADHWYF
DLLSKLPEDLKSFRPAKKILTKLQKFGENLDLRIRPHVLLKVLQDLRIWELCSPDIAVAIEFVR
EHIIHMPQEDYVNWLQSRVNMPIRHRPILT

hide sequence

RefSeq Acc Id:

XP_006249526 ⟸ XM_006249464

- Peptide Label:

isoform X1

- Sequence:

show sequence

MTKAPATKKLQRVPSKAIWLFSGSDQLTQASDKTVKSTKSMDKEIVNLKKDLIRSRFLIQCVKI
GRGYFTMLQEETAFKKHQQHLKKLQEEELNKFQPAKKYSDIQCRDTLLTTYEYEKMKKLEAGII
IRPFTPIHNCIMAPSLPESHVDPLFRQLCALHWLLEALTIDHTHHTMRPVIACWNPKDPGGSKS
TIKKINKDKSMGQRWDHFVTAPKTKKFKAPAIRSLATRKPSRRGSALSLTRTSGGSSPQSSMMS
VNPSSDEPTGSKDIEDNESSSTKPEEEVLHFSLQKLLEMVREDARRTILMETEMQKKAPSILSL
VKQVKSDYGWKDWQTTHKSSERSSTTSGESHIQVTQKKSKGSRANRDIIYCKTGICNTMRAKFY
SVAQEAGFCLQDKMEILKKRQEERGLQKFHSFIVTSNFQKDIAKMRHQVSMVKGDAEEMADHWY
FDLLSKLPEDLKSFRPAKKILTKLQKFGENLDLRIRPHVLLKVLQDLRIWELCSPDIAVAIEFV
REHIIHMPQEDYVNWLQSRVNMPIRHRPILT

hide sequence

Ensembl Acc Id:

ENSRNOP00000048419 ⟸ ENSRNOT00000046882

Ensembl Acc Id:

ENSRNOP00000092822 ⟸ ENSRNOT00000098883

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q3ZAV0-F1-model_v2	AlphaFold	Q3ZAV0	1-542	view protein structure

Transcriptome

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

Promoters

RGD ID:

13698680

Promoter ID:

EPDNEW_R9205

Type:

multiple initiation site

Name:

Ccdc60_1

Description:

coiled-coil domain containing 60

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	12	46,042,425 - 46,042,485	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1564283	AgrOrtholog
BioCyc Gene	G2FUF-19031	BioCyc
Ensembl Genes	ENSRNOG00000032684	Ensembl, ENTREZGENE
Ensembl Transcript	ENSRNOT00000046882	ENTREZGENE
	ENSRNOT00000098883	ENTREZGENE
IMAGE_CLONE	IMAGE:7133734	IMAGE-MGC_LOAD
InterPro	DUF4698	UniProtKB/Swiss-Prot
KEGG Report	rno:498190	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:124983	IMAGE-MGC_LOAD
NCBI Gene	498190	ENTREZGENE
PANTHER	COILED-COIL DOMAIN-CONTAINING PROTEIN 60	UniProtKB/Swiss-Prot
	PTHR34754	UniProtKB/Swiss-Prot
Pfam	DUF4698	UniProtKB/Swiss-Prot
PhenoGen	Ccdc60	PhenoGen
RatGTEx	ENSRNOG00000032684	RatGTEx
UniProt	A0A140TAG2	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I6AHS0	ENTREZGENE, UniProtKB/TrEMBL
	CCD60_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2013-05-24	Ccdc60	coiled-coil domain containing 60	LOC498201	hypothetical LOC498201	Data merged from RGD:1594394	1643240	APPROVED
2008-03-05	Ccdc60	coiled-coil domain containing 60	LOC498190	similar to hypothetical protein C130098D09	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-11-20	LOC498201	hypothetical LOC498201			Symbol and Name status set to provisional	70820	PROVISIONAL
2006-02-09	LOC498190	similar to hypothetical protein C130098D09			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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