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Gene: Ccdc13 (coiled-coil domain containing 13) Rattus norvegicus

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Symbol:

Ccdc13

Name:

coiled-coil domain containing 13

RGD ID:

1586605

Description:

Predicted to be involved in cytoplasmic microtubule organization and non-motile cilium assembly. Predicted to act upstream of or within DNA damage response. Predicted to be located in centrosome. Predicted to be active in centriolar satellite. Orthologous to human CCDC13 (coiled-coil domain containing 13); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; Cuprizon.

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

coiled-coil domain-containing protein 13; LOC686091; similar to coiled-coil domain containing 13

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):	CCDC13 (coiled-coil domain containing 13)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther
Mus musculus (house mouse):	Ccdc13 (coiled-coil domain containing 13)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Ccdc13 (coiled-coil domain containing 13)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CCDC13 (coiled-coil domain containing 13)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CCDC13 (coiled-coil domain containing 13)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Ccdc13 (coiled-coil domain containing 13)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CCDC13 (coiled-coil domain containing 13)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	CCDC13 (coiled-coil domain containing 13)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Ccdc13 (coiled-coil domain containing 13)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	CCDC13 (coiled-coil domain containing 13)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Ccdc13 (coiled-coil domain containing 13)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	ccdc13 (coiled-coil domain containing 13)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG13032	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):	ccdc13	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	8	130,335,797 - 130,391,658 (-)	NCBI		GRCr8
mRatBN7.2	8	121,455,202 - 121,507,487 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	8	121,457,697 - 121,502,337 (-)	Ensembl		mRatBN7.2 Ensembl
Rnor_6.0	8	130,436,529 - 130,475,521 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	8	130,437,157 - 130,475,320 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	8	129,615,611 - 129,653,317 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	8	127,098,740 - 127,139,377 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	8	120,592,355 - 120,623,289 (-)	NCBI		Celera
Cytogenetic Map	8	q32	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Ccdc13	Rat	congenital muscular dystrophy-dystroglycanopathy type A8		ISO	CCDC13 (Homo sapiens)	8554872	ClinVar Annotator: match by term: Muscular dystrophy-dystroglycanopathy (congenital with brain and eye anomalies), type a and 8	ClinVar	PMID:28492532

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Ccdc13	Rat	2,3,7,8-tetrachlorodibenzodioxine	affects expression	ISO	Ccdc13 (Mus musculus)	6480464	Tetrachlorodibenzodioxin affects the expression of CCDC13 mRNA	CTD	PMID:21570461
Ccdc13	Rat	2,3,7,8-tetrachlorodibenzodioxine	increases expression	EXP		6480464	Tetrachlorodibenzodioxin results in increased expression of CCDC13 mRNA	CTD	PMID:33387578
Ccdc13	Rat	2-palmitoylglycerol	increases expression	ISO	CCDC13 (Homo sapiens)	6480464	2-palmitoylglycerol results in increased expression of CCDC13 mRNA	CTD	PMID:37199045
Ccdc13	Rat	4,4'-sulfonyldiphenol	increases methylation	ISO	Ccdc13 (Mus musculus)	6480464	bisphenol S results in increased methylation of CCDC13 exon	CTD	PMID:33297965
Ccdc13	Rat	4,4'-sulfonyldiphenol	affects methylation	ISO	Ccdc13 (Mus musculus)	6480464	bisphenol S affects the methylation of CCDC13 gene	CTD	PMID:31683443
Ccdc13	Rat	benzo[a]pyrene	decreases methylation	ISO	CCDC13 (Homo sapiens)	6480464	Benzo(a)pyrene results in decreased methylation of CCDC13 exon and Benzo(a)pyrene results in decreased methylation of CCDC13 promoter	CTD	PMID:27901495
Ccdc13	Rat	benzo[a]pyrene	affects methylation	ISO	CCDC13 (Homo sapiens)	6480464	Benzo(a)pyrene affects the methylation of CCDC13 5' UTR	CTD	PMID:27901495
Ccdc13	Rat	benzo[a]pyrene	increases methylation	ISO	CCDC13 (Homo sapiens)	6480464	Benzo(a)pyrene results in increased methylation of CCDC13 3' UTR	CTD	PMID:27901495
Ccdc13	Rat	bis(2-ethylhexyl) phthalate	increases expression	ISO	Ccdc13 (Mus musculus)	6480464	Diethylhexyl Phthalate results in increased expression of CCDC13 mRNA	CTD	PMID:34319233
Ccdc13	Rat	bisphenol A	decreases expression	EXP		6480464	bisphenol A results in decreased expression of CCDC13 mRNA	CTD	PMID:25181051
Ccdc13	Rat	bisphenol A	increases methylation	ISO	CCDC13 (Homo sapiens)	6480464	bisphenol A results in increased methylation of CCDC13 gene	CTD	PMID:31601247
Ccdc13	Rat	bisphenol A	multiple interactions	ISO	CCDC13 (Homo sapiens)	6480464	[bisphenol A co-treated with Fulvestrant] results in increased methylation of CCDC13 gene	CTD	PMID:31601247
Ccdc13	Rat	butanal	decreases expression	ISO	CCDC13 (Homo sapiens)	6480464	butyraldehyde results in decreased expression of CCDC13 mRNA	CTD	PMID:26079696
Ccdc13	Rat	carbon nanotube	decreases expression	ISO	Ccdc13 (Mus musculus)	6480464	Nanotubes more ...	CTD	PMID:25554681
Ccdc13	Rat	chlorpyrifos	increases expression	ISO	Ccdc13 (Mus musculus)	6480464	Chlorpyrifos results in increased expression of CCDC13 mRNA	CTD	PMID:37019170
Ccdc13	Rat	Cuprizon	decreases expression	EXP		6480464	Cuprizone results in decreased expression of CCDC13 mRNA	CTD	PMID:26577399 and PMID:27523638
Ccdc13	Rat	dextran sulfate	increases expression	ISO	Ccdc13 (Mus musculus)	6480464	Dextran Sulfate results in increased expression of CCDC13 mRNA	CTD	PMID:35093514
Ccdc13	Rat	dicrotophos	decreases expression	ISO	CCDC13 (Homo sapiens)	6480464	dicrotophos results in decreased expression of CCDC13 mRNA	CTD	PMID:28302478
Ccdc13	Rat	dorsomorphin	multiple interactions	ISO	CCDC13 (Homo sapiens)	6480464	[NOG protein co-treated with entinostat co-treated with dorsomorphin co-treated with 4-(5-benzo(1 more ...	CTD	PMID:27188386
Ccdc13	Rat	entinostat	increases expression	ISO	CCDC13 (Homo sapiens)	6480464	entinostat results in increased expression of CCDC13 mRNA	CTD	PMID:26272509
Ccdc13	Rat	entinostat	multiple interactions	ISO	CCDC13 (Homo sapiens)	6480464	[NOG protein co-treated with entinostat co-treated with dorsomorphin co-treated with 4-(5-benzo(1 and 3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] results in increased expression of CCDC13 mRNA	CTD	PMID:27188386
Ccdc13	Rat	fenvalerate	increases expression	EXP		6480464	fenvalerate results in increased expression of CCDC13 mRNA	CTD	PMID:30307764
Ccdc13	Rat	fulvestrant	multiple interactions	ISO	CCDC13 (Homo sapiens)	6480464	[bisphenol A co-treated with Fulvestrant] results in increased methylation of CCDC13 gene	CTD	PMID:31601247
Ccdc13	Rat	gentamycin	increases expression	EXP		6480464	Gentamicins results in increased expression of CCDC13 mRNA	CTD	PMID:33387578
Ccdc13	Rat	Licochalcone B	increases expression	ISO	CCDC13 (Homo sapiens)	6480464	licochalcone B results in increased expression of CCDC13 mRNA	CTD	PMID:33647349
Ccdc13	Rat	ozone	multiple interactions	ISO	CCDC13 (Homo sapiens)	6480464	[Air Pollutants results in increased abundance of Ozone] which affects the expression of CCDC13 mRNA	CTD	PMID:35430440
Ccdc13	Rat	paracetamol	increases expression	EXP		6480464	Acetaminophen results in increased expression of CCDC13 mRNA	CTD	PMID:33387578
Ccdc13	Rat	pentachlorophenol	increases expression	ISO	Ccdc13 (Mus musculus)	6480464	Pentachlorophenol results in increased expression of CCDC13 mRNA	CTD	PMID:23892564
Ccdc13	Rat	pentanal	decreases expression	ISO	CCDC13 (Homo sapiens)	6480464	pentanal results in decreased expression of CCDC13 mRNA	CTD	PMID:26079696
Ccdc13	Rat	phenylmercury acetate	increases expression	ISO	CCDC13 (Homo sapiens)	6480464	Phenylmercuric Acetate results in increased expression of CCDC13 mRNA	CTD	PMID:26272509
Ccdc13	Rat	phenylmercury acetate	multiple interactions	ISO	CCDC13 (Homo sapiens)	6480464	[NOG protein co-treated with Phenylmercuric Acetate co-treated with dorsomorphin co-treated with 4-(5-benzo(1 and 3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] results in increased expression of CCDC13 mRNA	CTD	PMID:27188386
Ccdc13	Rat	SB 431542	multiple interactions	ISO	CCDC13 (Homo sapiens)	6480464	[NOG protein co-treated with entinostat co-treated with dorsomorphin co-treated with 4-(5-benzo(1 more ...	CTD	PMID:27188386
Ccdc13	Rat	sodium arsenite	increases expression	ISO	Ccdc13 (Mus musculus)	6480464	sodium arsenite results in increased expression of CCDC13 mRNA	CTD	PMID:37682722
Ccdc13	Rat	sodium fluoride	decreases expression	ISO	Ccdc13 (Mus musculus)	6480464	Sodium Fluoride results in decreased expression of CCDC13 protein	CTD	PMID:28918527
Ccdc13	Rat	sodium fluoride	increases expression	ISO	Ccdc13 (Mus musculus)	6480464	Sodium Fluoride results in increased expression of CCDC13 mRNA	CTD	PMID:27862939
Ccdc13	Rat	sulforaphane	increases expression	ISO	Ccdc13 (Mus musculus)	6480464	sulforaphane results in increased expression of CCDC13 mRNA	CTD	PMID:30529165
Ccdc13	Rat	titanium dioxide	affects expression	ISO	Ccdc13 (Mus musculus)	6480464	titanium dioxide affects the expression of CCDC13 mRNA	CTD	PMID:23557971
Ccdc13	Rat	titanium dioxide	decreases methylation	ISO	Ccdc13 (Mus musculus)	6480464	titanium dioxide results in decreased methylation of CCDC13 gene	CTD	PMID:35295148
Ccdc13	Rat	trichloroethene	increases expression	EXP		6480464	Trichloroethylene results in increased expression of CCDC13 mRNA	CTD	PMID:33387578
Ccdc13	Rat	triptonide	increases expression	ISO	Ccdc13 (Mus musculus)	6480464	triptonide results in increased expression of CCDC13 mRNA	CTD	PMID:33045310
Ccdc13	Rat	tris(2-butoxyethyl) phosphate	affects expression	ISO	CCDC13 (Homo sapiens)	6480464	tris(2-butoxyethyl) phosphate affects the expression of CCDC13 mRNA	CTD	PMID:29024780

Biological Process

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Ccdc13	Rat	cytoplasmic microtubule organization	acts_upstream_of_or_within	ISO	CCDC13 (Homo sapiens)	1624291	PMID:24816561	RGD	PMID:24816561
Ccdc13	Rat	cytoplasmic microtubule organization	involved_in	IBA	PANTHER:PTN001276877 and UniProtKB:Q8IYE1	1600115	GO_REF:0000033	GO_Central	GO_REF:0000033
Ccdc13	Rat	cytoplasmic microtubule organization	acts_upstream_of_or_within	IEA	UniProtKB:Q8IYE1 and ensembl:ENSP00000309836	1600115	GO_REF:0000107	Ensembl	GO_REF:0000107
Ccdc13	Rat	DNA damage response	acts_upstream_of_or_within	IEA	UniProtKB:Q8IYE1 and ensembl:ENSP00000309836	1600115	GO_REF:0000107	Ensembl	GO_REF:0000107
Ccdc13	Rat	DNA damage response	acts_upstream_of_or_within	ISO	CCDC13 (Homo sapiens)	1624291	PMID:24816561	RGD	PMID:24816561
Ccdc13	Rat	non-motile cilium assembly	acts_upstream_of_or_within	ISO	CCDC13 (Homo sapiens)	1624291	PMID:24816561	RGD	PMID:24816561
Ccdc13	Rat	non-motile cilium assembly	acts_upstream_of_or_within	IEA	UniProtKB:Q8IYE1 and ensembl:ENSP00000309836	1600115	GO_REF:0000107	Ensembl	GO_REF:0000107
Ccdc13	Rat	non-motile cilium assembly	involved_in	IBA	PANTHER:PTN001276877 and UniProtKB:Q8IYE1	1600115	GO_REF:0000033	GO_Central	GO_REF:0000033

Cellular Component

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Ccdc13	Rat	centriolar satellite	is_active_in	IBA	PANTHER:PTN001276878 and UniProtKB:Q8IYE1	1600115	GO_REF:0000033	GO_Central	GO_REF:0000033
Ccdc13	Rat	centriolar satellite	located_in	IEA	UniProtKB:Q8IYE1 and ensembl:ENSP00000309836	1600115	GO_REF:0000107	Ensembl	GO_REF:0000107
Ccdc13	Rat	centriolar satellite	located_in	ISO	CCDC13 (Homo sapiens)	1624291	PMID:24816561	RGD	PMID:24816561
Ccdc13	Rat	centrosome	located_in	ISO	CCDC13 (Homo sapiens)	1624291	PMID:24816561	RGD	PMID:24816561
Ccdc13	Rat	centrosome	located_in	IEA	UniProtKB:Q8IYE1 and ensembl:ENSP00000309836	1600115	GO_REF:0000107	Ensembl	GO_REF:0000107

Molecular Function

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Ccdc13	Rat	protein binding	enables	ISO	CCDC13 (Homo sapiens)	1624291	UniProtKB:A0A0C3SFZ9 more ...	RGD	PMID:24816561 and PMID:32296183

#	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.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

PMID:24816561

Ccdc13
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	8	130,335,797 - 130,391,658 (-)	NCBI		GRCr8
mRatBN7.2	8	121,455,202 - 121,507,487 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	8	121,457,697 - 121,502,337 (-)	Ensembl		mRatBN7.2 Ensembl
Rnor_6.0	8	130,436,529 - 130,475,521 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	8	130,437,157 - 130,475,320 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	8	129,615,611 - 129,653,317 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	8	127,098,740 - 127,139,377 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	8	120,592,355 - 120,623,289 (-)	NCBI		Celera
Cytogenetic Map	8	q32	NCBI

CCDC13
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	3	42,704,118 - 42,773,253 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	3	42,705,756 - 42,773,253 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	3	42,747,248 - 42,814,745 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	3	42,724,878 - 42,789,749 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	3	42,724,885 - 42,789,748	NCBI
Celera	3	42,690,269 - 42,755,122 (-)	NCBI		Celera
Cytogenetic Map	3	p22.1	NCBI
HuRef	3	42,795,514 - 42,860,384 (-)	NCBI		HuRef
CHM1_1	3	42,701,048 - 42,765,907 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	3	42,722,128 - 42,791,300 (-)	NCBI		T2T-CHM13v2.0

Ccdc13
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	9	121,626,690 - 121,668,581 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	9	121,626,693 - 121,668,527 (-)	Ensembl		GRCm39 Ensembl
GRCm38	9	121,797,624 - 121,839,515 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	9	121,797,627 - 121,839,461 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	9	121,726,480 - 121,745,639 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	9	121,726,480 - 121,745,639 (-)	NCBI		MGSCv36	mm8
Celera	9	122,290,743 - 122,310,553 (-)	NCBI		Celera
Cytogenetic Map	9	F4	NCBI
cM Map	9	72.63	NCBI

Ccdc13
(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_004955420	28,061,449 - 28,107,309 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955420	28,061,460 - 28,107,509 (+)	NCBI	ChiLan1.0	ChiLan1.0

CCDC13
(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	2	42,669,492 - 42,737,174 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	3	42,662,044 - 42,741,936 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	3	42,615,424 - 42,680,102 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	3	43,679,176 - 43,743,253 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	3	43,679,176 - 43,743,463 (-)	Ensembl	panpan1.1		panPan2

CCDC13
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	23	11,835,075 - 11,886,892 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	23	11,820,749 - 11,873,713 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	23	11,809,264 - 11,861,401 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	23	12,124,443 - 12,176,597 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	23	12,107,392 - 12,163,232 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	23	11,926,382 - 11,978,871 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	23	12,068,522 - 12,121,181 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	23	12,072,658 - 12,124,832 (-)	NCBI		UU_Cfam_GSD_1.0

Ccdc13
(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	199,998,819 - 200,055,094 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936695	2,350,640 - 2,402,557 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936695	2,350,668 - 2,404,882 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CCDC13
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	26,220,622 - 26,265,700 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	26,220,622 - 26,265,699 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	28,888,378 - 28,933,894 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CCDC13
(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	22	4,164,828 - 4,228,692 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	22	4,165,416 - 4,228,483 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666041	162,971,825 - 163,037,800 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Ccdc13
(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_004624730	76,963,296 - 76,998,464 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants in Ccdc13
126 total Variants

Predicted Target Of

	Summary Value
Count of predictions:	109
Count of miRNA genes:	95
Interacting mature miRNAs:	105
Transcripts:	ENSRNOT00000055863, ENSRNOT00000075439
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.

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
738011	Anxrr9	Anxiety related response QTL 9	6.1		exploratory behavior trait (VT:0010471)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	8	93535351	123900184	Rat
1358903	Bp252	Blood pressure QTL 252	7	0.0001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	93965141	123900184	Rat
738014	Anxrr15	Anxiety related response QTL 15	3.6	0.005	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	8	95718998	123900184	Rat
2300182	Bmd56	Bone mineral density QTL 56	5.4		femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	8	95718998	123900184	Rat
1554321	Bmd3	Bone mineral density QTL 3	7.9	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	8	40952565	123900184	Rat
2300181	Bmd55	Bone mineral density QTL 55	5.7	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	8	76468691	121468691	Rat
1358893	Bp263	Blood pressure QTL 263	5.01		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	93965141	123900184	Rat
61437	Cia6	Collagen induced arthritis QTL 6			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	8	82460758	122812818	Rat

D8Got180

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	8	130,475,836 - 130,475,967	NCBI	Rnor6.0
Rnor_5.0	8	129,653,799 - 129,653,959	UniSTS	Rnor5.0
RGSC_v3.4	8	127,092,495 - 127,093,604	UniSTS	RGSC3.4
RGSC_v3.4	8	127,092,494 - 127,092,615	RGD	RGSC3.4
RGSC_v3.4	8	127,092,495 - 127,092,615	UniSTS	RGSC3.4
RGSC_v3.1	8	127,112,232 - 127,112,352	RGD
Celera	8	120,632,260 - 120,632,376	UniSTS
RH 3.4 Map	8	1255.4	RGD
RH 3.4 Map	8	1255.4	UniSTS
RH 2.0 Map	8	1025.1	RGD
Cytogenetic Map	8	q32	UniSTS

RH141882

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	8	121,458,309 - 121,458,491 (+)	MAPPER	mRatBN7.2
Rnor_6.0	8	130,433,380 - 130,433,561	NCBI	Rnor6.0
Rnor_5.0	8	129,613,215 - 129,613,396	UniSTS	Rnor5.0
RGSC_v3.4	8	127,141,554 - 127,141,735	UniSTS	RGSC3.4
Celera	8	120,592,372 - 120,592,553	UniSTS
RH 3.4 Map	8	1254.79	UniSTS
Cytogenetic Map	8	q32	UniSTS

RH132084

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	8	121,514,180 - 121,514,330 (+)	MAPPER	mRatBN7.2
Rnor_6.0	8	130,482,521 - 130,482,670	NCBI	Rnor6.0
Rnor_5.0	8	129,660,283 - 129,660,432	UniSTS	Rnor5.0
RGSC_v3.4	8	127,085,707 - 127,085,856	UniSTS	RGSC3.4
Celera	8	120,638,964 - 120,639,113	UniSTS
RH 3.4 Map	8	1255.9	UniSTS
Cytogenetic Map	8	q32	UniSTS

RH142565

Rat Assembly	Chr	Position (strand)	Source
Celera	8	120,594,029 - 120,594,226	UniSTS
RH 3.4 Map	8	1332.5	UniSTS
Cytogenetic Map	8	q32	UniSTS

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

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	nervous system	renal system	reproductive system	respiratory system
9	11	29	113	55	54	23	23	23	6	160	75	93	45	60	31


RefSeq Transcripts	XM_008766709	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008766710	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017603549	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039082751	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039082753	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039082754	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039082755	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063266488	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063266489	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063266490	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063266491	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063266492	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAXUCZ010000008	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000075439 ⟹ ENSRNOP00000064373

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	8	121,457,697 - 121,499,452 (-)	Ensembl
Rnor_6.0 Ensembl	8	130,437,157 - 130,475,320 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000100163 ⟹ ENSRNOP00000093179

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	8	121,457,697 - 121,502,337 (-)	Ensembl

RefSeq Acc Id:

XM_039082751 ⟹ XP_038938679

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	8	130,335,797 - 130,391,658 (-)	NCBI
mRatBN7.2	8	121,455,202 - 121,507,485 (-)	NCBI

RefSeq Acc Id:

XM_039082753 ⟹ XP_038938681

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	8	130,335,797 - 130,379,537 (-)	NCBI
mRatBN7.2	8	121,455,202 - 121,502,030 (-)	NCBI

RefSeq Acc Id:

XM_039082754 ⟹ XP_038938682

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	8	130,335,797 - 130,391,658 (-)	NCBI
mRatBN7.2	8	121,455,202 - 121,507,485 (-)	NCBI

RefSeq Acc Id:

XM_039082755 ⟹ XP_038938683

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	8	130,337,625 - 130,391,658 (-)	NCBI
mRatBN7.2	8	121,460,117 - 121,507,487 (-)	NCBI

RefSeq Acc Id:

XM_063266488 ⟹ XP_063122558

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	8	130,335,797 - 130,379,537 (-)	NCBI

RefSeq Acc Id:

XM_063266489 ⟹ XP_063122559

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	8	130,351,928 - 130,379,536 (-)	NCBI

RefSeq Acc Id:

XM_063266490 ⟹ XP_063122560

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	8	130,351,928 - 130,391,658 (-)	NCBI

RefSeq Acc Id:

XM_063266491 ⟹ XP_063122561

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	8	130,351,928 - 130,379,536 (-)	NCBI

RefSeq Acc Id:

XM_063266492 ⟹ XP_063122562

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	8	130,351,928 - 130,379,535 (-)	NCBI


Protein RefSeqs	XP_038938679	(Get FASTA)	NCBI Sequence Viewer
	XP_038938681	(Get FASTA)	NCBI Sequence Viewer
	XP_038938682	(Get FASTA)	NCBI Sequence Viewer
	XP_038938683	(Get FASTA)	NCBI Sequence Viewer
	XP_063122558	(Get FASTA)	NCBI Sequence Viewer
	XP_063122559	(Get FASTA)	NCBI Sequence Viewer
	XP_063122560	(Get FASTA)	NCBI Sequence Viewer
	XP_063122561	(Get FASTA)	NCBI Sequence Viewer
	XP_063122562	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000064373.3
	ENSRNOP00000093179
	ENSRNOP00000093179.1

Ensembl Acc Id:

ENSRNOP00000064373 ⟸ ENSRNOT00000075439

RefSeq Acc Id:	XP_038938682 ⟸ XM_039082754
- Peptide Label:	isoform X2
- UniProtKB:	A0A8I6AFB0 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038938679 ⟸ XM_039082751
- Peptide Label:	isoform X1
- UniProtKB:	M0R4S7 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038938681 ⟸ XM_039082753
- Peptide Label:	isoform X1
- UniProtKB:	M0R4S7 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038938683 ⟸ XM_039082755
- Peptide Label:	isoform X3

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-M0R4S7-F1-model_v2	AlphaFold	M0R4S7	1-645	view protein structure

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

RGD ID:

13696394

Promoter ID:

EPDNEW_R6916

Type:

single initiation site

Name:

Ccdc13_1

Description:

coiled-coil domain containing 13

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	8	130,475,314 - 130,475,374	EPDNEW

Database	Acc Id	Source(s)
BioCyc Gene	G2FUF-28678	BioCyc
Ensembl Genes	ENSRNOG00000025643	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000075439.4	UniProtKB/TrEMBL
	ENSRNOT00000100163	ENTREZGENE
	ENSRNOT00000100163.1	UniProtKB/TrEMBL
InterPro	CCDC13	UniProtKB/TrEMBL
NCBI Gene	686091	ENTREZGENE
PANTHER	COILED-COIL DOMAIN-CONTAINING PROTEIN 13	UniProtKB/TrEMBL
	PTHR31935	UniProtKB/TrEMBL
PhenoGen	Ccdc13	PhenoGen
RatGTEx	ENSRNOG00000025643	RatGTEx
UniProt	A0A8I6AFB0	ENTREZGENE, UniProtKB/TrEMBL
	M0R4S7	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2013-05-24	Ccdc13	coiled-coil domain containing 13	LOC687047	similar to coiled-coil domain containing 13	Data merged from RGD:1590122	1643240	APPROVED
2010-04-23	Ccdc13	coiled-coil domain containing 13	LOC686091	similar to coiled-coil domain containing 13	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-01-09	LOC686091	similar to coiled-coil domain containing 13	LOC686425	similar to coiled-coil domain containing 13	Data merged from RGD:1597659	1643240	APPROVED
2006-11-20	LOC687047	similar to coiled-coil domain containing 13			Symbol and Name status set to provisional	70820	PROVISIONAL
2006-11-20	LOC686425	similar to coiled-coil domain containing 13			Symbol and Name status set to provisional	70820	PROVISIONAL
2006-11-19	LOC686091	similar to coiled-coil domain containing 13			Symbol and Name status set to provisional	70820	PROVISIONAL

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


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


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