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Gene: Ccdc28a (coiled-coil domain containing 28A) Rattus norvegicus

Analyze

Symbol:

Ccdc28a

Name:

coiled-coil domain containing 28A

RGD ID:

1310326

Description:

Orthologous to human CCDC28A (coiled-coil domain containing 28A); INTERACTS WITH 17beta-estradiol; 6-propyl-2-thiouracil; acetamide.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

chemokine C-C motif receptor-like 1 adjacent; coiled-coil domain-containing protein 28A; LOC361454; MGC116395; RGD1310326; similar to chromosome 6 open reading frame 80

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):	CCDC28A (coiled-coil domain containing 28A)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, Panther
Mus musculus (house mouse):	Ccdc28a (coiled-coil domain containing 28A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Ccdc28a (coiled-coil domain containing 28A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CCDC28A (coiled-coil domain containing 28A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CCDC28A (coiled-coil domain containing 28A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CCDC28A (coiled-coil domain containing 28A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	CCDC28A (coiled-coil domain containing 28A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Ccdc28a (coiled-coil domain containing 28A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Ccdc28a (coiled-coil domain containing 28A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Ccdc28a (coiled-coil domain containing 28A)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	CCDC28A (coiled-coil domain containing 28A)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	CCDC28A (coiled-coil domain containing 28A)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	ccdc28a (coiled-coil domain containing 28A)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG10874	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG10874	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	ccdc28a	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	1	14,677,451 - 14,692,729 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	1	14,677,449 - 14,692,522 (-)	Ensembl				GRCr8
mRatBN7.2	1	12,857,668 - 12,872,944 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	12,857,666 - 12,873,003 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	1	12,629,455 - 12,644,028 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	18,631,379 - 18,645,952 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	12,837,959 - 12,852,996 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	13,384,153 - 13,395,643 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	13,384,156 - 13,395,370 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	1	15,072,108 - 15,083,495 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	1	13,269,164 - 13,284,200 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	1	11,314,407 - 11,329,332 (-)	NCBI		Celera
RGSC_v3.1	1	13,269,225 - 13,284,298 (-)	NCBI
Cytogenetic Map	1	p12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

myoepithelioma (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(1->4)-beta-D-glucan (ISO)

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

17beta-estradiol (EXP,ISO)

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

2-hydroxypropanoic acid (ISO)

6-propyl-2-thiouracil (EXP)

acetamide (EXP)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

amitrole (EXP)

arsenite(3-) (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP)

bisphenol F (ISO)

Butylbenzyl phthalate (ISO)

cadmium atom (ISO)

cadmium dichloride (ISO)

carbon nanotube (ISO)

CGP 52608 (ISO)

clotrimazole (EXP)

DDE (ISO)

dicrotophos (ISO)

epoxiconazole (ISO)

ethanol (ISO)

ethyl methanesulfonate (ISO)

formaldehyde (ISO)

glafenine (EXP)

graphene oxide (ISO)

GSK-J4 (ISO)

hydrogen peroxide (ISO)

indole-3-methanol (EXP)

methimazole (EXP)

methyl methanesulfonate (ISO)

okadaic acid (ISO)

paracetamol (ISO)

perfluorooctane-1-sulfonic acid (ISO)

perfluorooctanoic acid (ISO)

phenobarbital (ISO)

pirinixic acid (ISO)

rac-lactic acid (ISO)

sodium arsenate (ISO)

sodium arsenite (ISO)

Soman (EXP)

sulfadimethoxine (EXP)

temozolomide (ISO)

tetrachloromethane (ISO)

triphenyl phosphate (ISO)

triptonide (ISO)

tunicamycin (ISO)

urethane (ISO)

valdecoxib (EXP)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cell morphogenesis (ISO)

single fertilization (ISO)

spermatogenesis (ISO)

Molecular Function

protein binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	GOA pipeline	RGD automated data pipeline
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:12477932

Genomics

Comparative Map Data

Ccdc28a
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	1	14,677,451 - 14,692,729 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	1	14,677,449 - 14,692,522 (-)	Ensembl				GRCr8
mRatBN7.2	1	12,857,668 - 12,872,944 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	12,857,666 - 12,873,003 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	1	12,629,455 - 12,644,028 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	18,631,379 - 18,645,952 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	12,837,959 - 12,852,996 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	13,384,153 - 13,395,643 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	13,384,156 - 13,395,370 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	1	15,072,108 - 15,083,495 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	1	13,269,164 - 13,284,200 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	1	11,314,407 - 11,329,332 (-)	NCBI		Celera
RGSC_v3.1	1	13,269,225 - 13,284,298 (-)	NCBI
Cytogenetic Map	1	p12	NCBI

CCDC28A
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	6	138,773,769 - 138,793,319 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	6	138,773,493 - 138,793,319 (+)	Ensembl			hg38	GRCh38
GRCh37	6	139,094,906 - 139,114,456 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	6	139,136,350 - 139,156,149 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	6	139,136,349 - 139,156,147	NCBI
Celera	6	139,834,761 - 139,854,557 (+)	NCBI		Celera
Cytogenetic Map	6	q24.1	NCBI
HuRef	6	136,656,063 - 136,675,758 (+)	NCBI		HuRef
CHM1_1	6	139,357,677 - 139,377,457 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	6	139,962,307 - 139,981,863 (+)	NCBI		T2T-CHM13v2.0

Ccdc28a
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	10	18,089,424 - 18,110,940 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	10	18,089,424 - 18,110,746 (-)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	10	18,213,676 - 18,235,805 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	10	18,213,676 - 18,234,998 (-)	Ensembl			mm10	GRCm38
MGSCv37	10	17,933,491 - 17,954,787 (-)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	10	17,906,343 - 17,924,394 (-)	NCBI		MGSCv36	mm8
MGSCv36	10	18,092,971 - 18,111,028 (-)	NCBI		MGSCv36	mm8
Celera	10	18,112,973 - 18,144,756 (-)	NCBI		Celera
Cytogenetic Map	10	A3	NCBI
cM Map	10	7.53	NCBI

Ccdc28a
(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_004955436	20,846,227 - 20,873,552 (-)	Ensembl
ChiLan1.0	NW_004955436	20,849,493 - 20,875,284 (-)	NCBI	ChiLan1.0	ChiLan1.0

CCDC28A
(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	5	158,740,208 - 158,759,522 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	6	156,637,791 - 156,657,108 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	6	136,533,841 - 136,553,303 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	6	140,619,716 - 140,638,830 (+)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	6	140,619,716 - 140,638,830 (+)	Ensembl			panPan2	panpan1.1

CCDC28A
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	1	31,044,102 - 31,058,173 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	1	31,044,126 - 31,057,800 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	1	31,920,945 - 31,935,141 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	1	31,207,239 - 31,221,442 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	1	31,207,395 - 31,221,439 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	1	31,084,696 - 31,098,895 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	1	30,966,784 - 30,981,007 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	1	31,276,492 - 31,290,694 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

CCDC28A
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	1	25,647,000 - 25,663,273 (-)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	1	25,646,997 - 25,663,277 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	1	28,782,282 - 28,798,563 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CCDC28A
(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	13	34,596,584 - 34,615,633 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666040	6,769,559 - 6,788,468 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Ccdc28a
(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_004624753	15,157,391 - 15,185,029 (-)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624753	15,157,509 - 15,185,253 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Ccdc28a
(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	2	218,657,765 - 218,671,964 (+)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Ccdc28a
30 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	73
Count of miRNA genes:	65
Interacting mature miRNAs:	72
Transcripts:	ENSRNOT00000061756
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
2313090	Bmd69	Bone mineral density QTL 69	4.4	0.0001	tibia mineral mass (VT:1000283)	compact volumetric bone mineral density (CMO:0001730)	1	5293229	34184556	Rat
631688	Hcas2	Hepatocarcinoma susceptibility QTL 2	3	0.0001	liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	1	7746118	52746118	Rat
4889451	Eae29	Experimental allergic encephalomyelitis QTL 29	5.51		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis severity score (CMO:0001419)	1	7746121	52746121	Rat
70179	Xhs2	X-ray hypersensitivity QTL 2	3.2		intestine integrity trait (VT:0010554)	post-insult time to onset of moribundity (CMO:0001896)	1	1	43965634	Rat
1354647	Despr8	Despair related QTL 8		0.0000341	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	1	1	26564886	Rat
1558642	Prcr2	Prostate cancer resistance QTL 2	4.3		prostate integrity trait (VT:0010571)	area of ventral prostate occupied by tumorous lesions to total ventral prostate area ratio (CMO:0000899)	1	10379492	55379492	Rat
7421626	Bp360	Blood pressure QTL 360		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	6941022	51941022	Rat
2313070	Bss52	Bone structure and strength QTL 52	4.4	0.0001	body length (VT:0001256)	body length (CMO:0000013)	1	5293229	34184556	Rat
1357401	Bw43	Body weight QTL 43	3.75		body mass (VT:0001259)	body weight (CMO:0000012)	1	6909353	51909353	Rat
1600360	Mcs16	Mammary carcinoma susceptibility QTL 16	2.4		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	1	1	26564886	Rat
5684998	Bss101	Bone structure and strength QTL 101	3.6		tibia strength trait (VT:1000284)	tibia ultimate force (CMO:0001734)	1	6909353	51909353	Rat
5684999	Bss102	Bone structure and strength QTL 102	5.5	7e-07	tibia strength trait (VT:1000284)	tibia stiffness (CMO:0001735)	1	6909353	51909353	Rat
2302038	Pia31	Pristane induced arthritis QTL 31	5.5	0.001	blood autoantibody amount (VT:0003725)	serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)	1	12820494	57820494	Rat
2317755	Glom22	Glomerulus QTL 22	3.8		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	1	1	34184556	Rat
1300170	Rf6	Renal function QTL 6	3.14		renal blood flow trait (VT:2000006)	absolute change in renal blood flow rate (CMO:0001168)	1	1	28483164	Rat
631508	Sald1	Serum aldosterone level QTL 1	3.7		blood aldosterone amount (VT:0005346)	serum aldosterone level (CMO:0000487)	1	11684464	56684464	Rat
2313053	Bss51	Bone structure and strength QTL 51	3.8	0.0001	tibia length (VT:0004357)	tibia length (CMO:0000450)	1	5293229	34184556	Rat

Markers in Region

RH129522

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	12,857,764 - 12,857,955 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	13,384,250 - 13,384,440	NCBI	Rnor6.0
Rnor_5.0	1	15,072,205 - 15,072,395	UniSTS	Rnor5.0
RGSC_v3.4	1	13,269,261 - 13,269,451	UniSTS	RGSC3.4
Celera	1	11,314,504 - 11,314,694	UniSTS
RH 3.4 Map	1	132.5	UniSTS
Cytogenetic Map	1	p12	UniSTS

RH131595

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	12,874,395 - 12,874,613 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	13,397,060 - 13,397,277	NCBI	Rnor6.0
Rnor_6.0	1	11,843,823 - 11,844,040	NCBI	Rnor6.0
Rnor_5.0	1	15,085,015 - 15,085,232	UniSTS	Rnor5.0
Rnor_5.0	1	13,438,014 - 13,438,231	UniSTS	Rnor5.0
RGSC_v3.4	1	13,285,891 - 13,286,108	UniSTS	RGSC3.4
Celera	1	11,331,022 - 11,331,239	UniSTS
RH 3.4 Map	1	131.3	UniSTS
Cytogenetic Map	1	p12	UniSTS

RH135233

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	12,871,665 - 12,871,848 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	13,394,330 - 13,394,512	NCBI	Rnor6.0
Rnor_6.0	1	11,841,092 - 11,841,274	NCBI	Rnor6.0
Rnor_5.0	1	15,082,285 - 15,082,467	UniSTS	Rnor5.0
Rnor_5.0	1	13,435,283 - 13,435,465	UniSTS	Rnor5.0
RGSC_v3.4	1	13,283,160 - 13,283,342	UniSTS	RGSC3.4
Celera	1	11,328,292 - 11,328,474	UniSTS
RH 3.4 Map	1	131.9	UniSTS
Cytogenetic Map	1	p12	UniSTS

BE118601

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	12,872,877 - 12,873,067 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	13,395,542 - 13,395,731	NCBI	Rnor6.0
Rnor_6.0	1	11,842,304 - 11,842,493	NCBI	Rnor6.0
Rnor_5.0	1	15,083,497 - 15,083,686	UniSTS	Rnor5.0
Rnor_5.0	1	13,436,495 - 13,436,684	UniSTS	Rnor5.0
RGSC_v3.4	1	13,284,372 - 13,284,561	UniSTS	RGSC3.4
Celera	1	11,329,504 - 11,329,693	UniSTS
RH 3.4 Map	1	131.9	UniSTS
Cytogenetic Map	1	p12	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

alimentary part of gastrointestinal system	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
16	12	67	165	91	90	59	92	59	6	356	192	11	144	81	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001037789	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006227660	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006227661	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039081103	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039081106	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063265998	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063266001	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063266007	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063266008	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC100268	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ212615	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ213153	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000001	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000085519 ⟹ ENSRNOP00000069590

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	1	14,677,449 - 14,692,522 (-)	Ensembl
mRatBN7.2 Ensembl	1	12,857,694 - 12,872,748 (-)	Ensembl
Rnor_6.0 Ensembl	1	13,384,156 - 13,395,370 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000096473 ⟹ ENSRNOP00000083034

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	1	14,677,449 - 14,689,339 (-)	Ensembl
mRatBN7.2 Ensembl	1	12,857,666 - 12,869,556 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000106151 ⟹ ENSRNOP00000080779

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	1	14,681,415 - 14,692,522 (-)	Ensembl
mRatBN7.2 Ensembl	1	12,862,496 - 12,873,003 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000112538 ⟹ ENSRNOP00000097209

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	12,857,668 - 12,873,003 (-)	Ensembl

RefSeq Acc Id:

NM_001037789 ⟹ NP_001032878

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	14,677,451 - 14,692,489 (-)	NCBI
mRatBN7.2	1	12,857,668 - 12,872,706 (-)	NCBI
Rnor_6.0	1	13,384,153 - 13,395,370 (-)	NCBI
Rnor_5.0	1	15,072,108 - 15,083,495 (-)	NCBI
RGSC_v3.4	1	13,269,164 - 13,284,200 (-)	RGD
Celera	1	11,314,407 - 11,329,332 (-)	RGD

Sequence:

show sequence

GGCGACCTGAGTGGGCTCTTGCTGCAACTCTGGCAGAGGCTTTAAACTCTCTCTTACCTTTTCC
AGACGAGGAAGGGTAACCACAGCCCTTTCTTCCTTCGGTCTTAATGAAGCTGGTATTGATGCAA
CAAAGATTTTAAGACAATGGAAGAGCGGAAAGCAAAGAGGAAGAGTCCCAAGTCCTTCAGTGCC
CACTCTACTCAGGTTGTTAATGCCAAAAAAAATACCATCCCAGCTAGCAAAAGCACAGGGTTTT
CAAATCCCGCGTCGCAGTCAACTTCCCAGAGGCCAAAGTTAAAAAGGGTGACGAAAGAAAAGAA
CAAACCTCCAGGAGGAGAAGGGAAGGGTGCCCAGGCCACACCCATCCAGCACTCCTTCCTCACC
GACGTCTCTGATGTCCAGGAGATGGAGCGCGGGCTCCTTAGTCTGCTGAATGATTTCCACTCAG
GAAAGCTGCAGGCGTTTGGAAATGAATGTTCCATAGAACAGATGGAACATGTCCGGGGAATGCA
GGAAAAATTAGCTCGCTTGAATTTGGAGCTCTACGGGGAGTTAGAAGAACTTCCGGAGGATAAG
CGGAAAGCAGTCAGTGACGCCAACCTGGACAGGCTGCTGTCTGACTTAGAAGAATTGAATTCTT
CTATACAGAAACTGCATTTGGCCGATGCGCAGGACGTTCCCAGTGCACCCAGCAGCTAATGCGG
CCCGCAGCCTGCAGCCTGCTCTGAGACTTGCAGGGAAGCAGCAGTCATTACTTCCAGCCCAGTC
CTGTGGCAGAATCATCTCCCGCAACAGACTCTCGAGTCACGAGAATGCAAGTGCAGTGATCATG
TCCACACGCCGCTTCCAGTCCATGTGCTCGCTGTACTCCACCGCCGGGGAGGCCGTGGCCCGCC
TGTAGGTCTCCTCGGGAAGTGGGACACAGAGTTGTGCTGCTATGCTTTCTTTTGTTGCCTTAAG
GGTTATACTTGAAATGCATCGTGCTAAACGTTGTCGGGCTGAAGGATTCGTCCTTGCCATGGCC
GCACTGACCCAGTGCCGGTCACACGGTGGTGGTGCACAGGTGTCCTGTAGCGGTCCAGCTTCAG
TTTACGTCAGACAATCAGTACACACGCAGGTGTGTTTCCCAATGGCCAGTGACAAATGTTTAAT
AAGTACTCGTGAGATTTGCTATTTTTAATAAAGCAATTGTTTTAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_006227660 ⟹ XP_006227722

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	14,682,273 - 14,692,526 (-)	NCBI
mRatBN7.2	1	12,860,441 - 12,872,751 (-)	NCBI
Rnor_6.0	1	13,387,957 - 13,395,430 (-)	NCBI
Rnor_5.0	1	15,072,108 - 15,083,495 (-)	NCBI

Sequence:

show sequence

GCCCCGATTACATCACTTCCGTAAACAAAGGGCGCTTGCCCTGGGTCTGTGACCCAGTCTGGCG
ACCTGAGTGGGCTCTTGCTGCAACTCTGGCAGAGGCTTTAAACTCTCTCTTACCTTTTCCAGAC
GAGGAAGGGTAACCACAGCCCTTTCTTCCTTCGGTCTTAATGAAGCTGGTATTGATGCAACAAA
GATTTTAAGACAATGGAAGAGCGGAAAGCAAAGAGGAAGAGTCCCAAGTCCTTCAGTGCCCACT
CTACTCAGGTTGTTAATGCCAAAAAAAATACCATCCCAGCTAGCAAAAGCACAGGGTTTTCAAA
TCCCGCGTCGCAGTCAACTTCCCAGAGGCCAAAGTTAAAAAGGGTGACGAAAGAAAAGAACAAA
CCTCCAGGAGGAGAAGGGAAGGGTGCCCAGGCCACACCCATCCAGCACTCCTTCCTCACCGACG
TCTCTGATGTCCAGGAGATGGAGCGCGGGCTCCTTAGTCTGCTGAATGATTTCCACTCAGGAAA
GCTGCAGGCGTTTGGAAATGAATGTTCCATAGAACAGATGGAACATGTCCGGGGAATGCAGGAA
AAATTAGCTCGCTTGAATTTGGAGCTCTACGGGGAGTTAGAAGAACTTCCGGAGGATAAGCGGA
AAGCAGTCAGTGACGCCAACCTGGACAGGCTGCTGTCTGACGGGGCTGAAAAGCTGACTCAGCG
TCTAAAAGTACTTGCTGCTCTTGTAGAAGACCCAGATTCTGTTCCCAGCACCCACATGGCGGCC
CTCGACCCTCTATAACTTCAGTTCCGGGGATCTGAAGCCATCTCCTGGCCTCTGAGGGCACCAG
GCACACATACGGTGCACGTGCTTACATTTGGGCAGAGCCTACATACCTATAAAATAAAAATAAA
CATCTAAACCCTTCTTTAGGGAGCTAGGGAGATGGCTCAGTCAGTAAAGTTCTTGTCACGGCAG
AGGGCCTGAGTTCAGATCCTCAGCCCCTGTGCCAAGTGCCTGTGACCTCAGCTCTAGAGAAGCA
GAGCCAAGCAGGTCTGAGGATCACAGGCCTCCCTTGCTTGTTGAGTCTGTGAGCTTCAGGTAGG
TGAGAGATCCCATGTCAAAGAAAGGAGGTGCAGAACAACTAAGGAGGACACCCAACGCCGCTGG
CTTCCCTACGTGCAGGCACACTGGCTCGTATGCATACGCAAACATTTTATAGAACAAAGGGGGG
TAAATAAAAACTGACCCCAGTGTGTTTAGCTTCATGTTCACCAGAGACAAGAGAGCTTGTTTCT
GCAATTTTTTTCTTTTTCTCTTTCATTTCTTTTTTTTTTTTTTTTTTTTTTTGGAAAAGTAAAT
ATAAGGCAACTGTCCGCCCACACTTTAAAAACTTTATGCCTAGATTAGCAGTGCATTCTTGTAA
TCCCAGCATTTGGGAAGGAGGAAAAGGAGTTCAAGGCCAGCCTGGGCTATATGAGACCTCTCCC
AAAAAAACAAACAAAAAGCCCTTCGAGCCTGTACTTTTAAGTGTCAACTCTGCCATATATTATT
TGACCTCACAAGTGTTCAGTTCAGTCTTCTGCTCCATATTTCTTAAATATAAGTTTAATTTGTG
TACCTTTAGAGCATTTCGGAAATAAATTTTAAACTGGGAGGTATAGTGCGAGGCTTTATCAGTT
GTACTTGGTGACACTGGACAGTCTAGGTAACTTATCCTGGAGATTAAGCCAAGGGCAGACAAGT
ACTCCACCACTAACTACACCCCAGCCAGCATTTCTTTTTTCTTTTTTTTTTCTTCTTCTTCTTT
TTCTTTTTTCTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTGCTAGGCAGGCGC
TCTACCACTGAGCTAAATCTCCAACCCCCAAAAGCATTTCTTTACTGTATATTTCTCCTTCTAA
AATGAAAGGTAGTATGGTCCGAA

hide sequence

RefSeq Acc Id:

XM_039081103 ⟹ XP_038937031

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	14,677,451 - 14,692,526 (-)	NCBI
mRatBN7.2	1	12,858,220 - 12,872,751 (-)	NCBI

RefSeq Acc Id:

XM_039081106 ⟹ XP_038937034

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	14,677,451 - 14,692,729 (-)	NCBI
mRatBN7.2	1	12,858,220 - 12,872,944 (-)	NCBI

RefSeq Acc Id:

XM_063265998 ⟹ XP_063122068

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	14,677,451 - 14,692,527 (-)	NCBI

RefSeq Acc Id:

XM_063266001 ⟹ XP_063122071

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	14,682,273 - 14,692,729 (-)	NCBI

RefSeq Acc Id:

XM_063266007 ⟹ XP_063122077

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	14,677,451 - 14,692,527 (-)	NCBI

RefSeq Acc Id:

XM_063266008 ⟹ XP_063122078

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	14,677,451 - 14,692,729 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001032878	(Get FASTA)	NCBI Sequence Viewer
	XP_006227722	(Get FASTA)	NCBI Sequence Viewer
	XP_038937031	(Get FASTA)	NCBI Sequence Viewer
	XP_038937034	(Get FASTA)	NCBI Sequence Viewer
	XP_063122068	(Get FASTA)	NCBI Sequence Viewer
	XP_063122071	(Get FASTA)	NCBI Sequence Viewer
	XP_063122077	(Get FASTA)	NCBI Sequence Viewer
	XP_063122078	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI00269	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000069590
	ENSRNOP00000069590.3
	ENSRNOP00000080779
	ENSRNOP00000080779.1
	ENSRNOP00000083034.1

RefSeq Acc Id:	NP_001032878 ⟸ NM_001037789
- UniProtKB:	Q498D0 (UniProtKB/TrEMBL)
- Sequence:	show sequence MEERKAKRKSPKSFSAHSTQVVNAKKNTIPASKSTGFSNPASQSTSQRPKLKRVTKEKNKPPGG EGKGAQATPIQHSFLTDVSDVQEMERGLLSLLNDFHSGKLQAFGNECSIEQMEHVRGMQEKLAR LNLELYGELEELPEDKRKAVSDANLDRLLSDLEELNSSIQKLHLADAQDVPSAPSS hide sequence

RefSeq Acc Id:	XP_006227722 ⟸ XM_006227660
- Peptide Label:	isoform X2
- UniProtKB:	A0A8I5ZQU5 (UniProtKB/TrEMBL)
- Sequence:	show sequence MEERKAKRKSPKSFSAHSTQVVNAKKNTIPASKSTGFSNPASQSTSQRPKLKRVTKEKNKPPGG EGKGAQATPIQHSFLTDVSDVQEMERGLLSLLNDFHSGKLQAFGNECSIEQMEHVRGMQEKLAR LNLELYGELEELPEDKRKAVSDANLDRLLSDGAEKLTQRLKVLAALVEDPDSVPSTHMAALDPL hide sequence

Ensembl Acc Id:

ENSRNOP00000069590 ⟸ ENSRNOT00000085519

RefSeq Acc Id:	XP_038937034 ⟸ XM_039081106
- Peptide Label:	isoform X1
- UniProtKB:	A0A0G2JVR7 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038937031 ⟸ XM_039081103
- Peptide Label:	isoform X1
- UniProtKB:	A0A0G2JVR7 (UniProtKB/TrEMBL)

Ensembl Acc Id:

ENSRNOP00000097209 ⟸ ENSRNOT00000112538

Ensembl Acc Id:

ENSRNOP00000083034 ⟸ ENSRNOT00000096473

Ensembl Acc Id:

ENSRNOP00000080779 ⟸ ENSRNOT00000106151

RefSeq Acc Id:	XP_063122078 ⟸ XM_063266008
- Peptide Label:	isoform X3
- UniProtKB:	Q498D0 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_063122077 ⟸ XM_063266007
- Peptide Label:	isoform X3
- UniProtKB:	Q498D0 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_063122068 ⟸ XM_063265998
- Peptide Label:	isoform X1
- UniProtKB:	A0A0G2JVR7 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_063122071 ⟸ XM_063266001
- Peptide Label:	isoform X2
- UniProtKB:	A0A8I5ZQU5 (UniProtKB/TrEMBL)

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q498D0-F1-model_v2	AlphaFold	Q498D0	1-184	view protein structure

Transcriptome

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

Promoters

RGD ID:

13689505

Promoter ID:

EPDNEW_R30

Type:

initiation region

Name:

Ccdc28a_1

Description:

coiled-coil domain containing 28A

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	1	13,395,410 - 13,395,470	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1310326	AgrOrtholog
BioCyc Gene	G2FUF-62277	BioCyc
Ensembl Genes	ENSRNOG00000053347	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000085519	ENTREZGENE
	ENSRNOT00000085519.3	UniProtKB/TrEMBL
	ENSRNOT00000096473.2	UniProtKB/TrEMBL
	ENSRNOT00000106151	ENTREZGENE
	ENSRNOT00000106151.2	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7385321	IMAGE-MGC_LOAD
InterPro	DUF4061	UniProtKB/TrEMBL
KEGG Report	rno:361454	UniProtKB/TrEMBL
MGC_CLONE	MGC:116395	IMAGE-MGC_LOAD
NCBI Gene	361454	ENTREZGENE
PANTHER	COILED-COIL DOMAIN-CONTAINING PROTEIN 28A	UniProtKB/TrEMBL
	PTHR13400	UniProtKB/TrEMBL
Pfam	DUF4061	UniProtKB/TrEMBL
PhenoGen	Ccdc28a	PhenoGen
RatGTEx	ENSRNOG00000053347	RatGTEx
UniProt	A0A0G2JVR7	ENTREZGENE
	A0A8I5ZQU5	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I5ZYH0_RAT	UniProtKB/TrEMBL
	Q498D0	ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary	A0A0G2JVR7	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-02-27	Ccdc28a	coiled-coil domain containing 28A	RGD1310326	similar to chromosome 6 open reading frame 80; chemokine C-C motif receptor-like 1 adjacent	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-12-06	RGD1310326	similar to chromosome 6 open reading frame 80; chemokine C-C motif receptor-like 1 adjacent	RGD1310326_predicted	similar to chromosome 6 open reading frame 80; chemokine C-C motif receptor-like 1 adjacent (predicted)	Symbol and Name updated	1559027	APPROVED
2005-01-20	RGD1310326_predicted	similar to chromosome 6 open reading frame 80; chemokine C-C motif receptor-like 1 adjacent (predicted)	LOC361454_predicted		Symbol and Name status set to approved	1331353	APPROVED
2005-01-12	LOC361454_predicted	similar to chromosome 6 open reading frame 80; chemokine C-C motif receptor-like 1 adjacent (predicted)			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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