Prim2 (DNA primase subunit 2) - Rat Genome Database

Name: Prim2
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Prim2 (DNA primase subunit 2) Rattus norvegicus

Analyze

Symbol:

Prim2

Name:

DNA primase subunit 2

RGD ID:

631433

Description:

Predicted to enable 4 iron, 4 sulfur cluster binding activity and DNA/RNA hybrid binding activity. Predicted to be involved in DNA replication initiation and DNA replication, synthesis of RNA primer. Predicted to be part of alpha DNA polymerase:primase complex. Orthologous to human PRIM2 (DNA primase subunit 2); PARTICIPATES IN DNA replication pathway; purine metabolic pathway; pyrimidine metabolic pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; amitrole.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

DNA polymerase alpha subunit III (primase); DNA primase 58 kDa subunit; DNA primase large subunit; DNA primase, p58 subunit; p58; Pola3; primase (DNA) subunit 2; primase, DNA, polypeptide 2

RGD Orthologs

Alliance Genes

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):	PRIM2 (DNA primase subunit 2)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OMA, Panther, PhylomeDB
Mus musculus (house mouse):	Prim2 (DNA primase, p58 subunit)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Prim2 (DNA primase subunit 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	PRIM2 (DNA primase subunit 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	PRIM2 (DNA primase subunit 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Prim2 (DNA primase subunit 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	PRIM2 (DNA primase subunit 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	PRIM2 (DNA primase subunit 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Prim2 (DNA primase subunit 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	PRIM2 (DNA primase subunit 2)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Prim2 (DNA primase, p58 subunit)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	prim2 (DNA primase subunit 2)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	PRI2	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	DNApol-alpha60	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	pri-2	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoInspector\|PANTHER\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	prim2	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	9	43,188,350 - 43,400,482 (-)	NCBI		GRCr8
mRatBN7.2	9	35,692,376 - 35,904,521 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	9	35,692,376 - 35,903,030 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	9	44,192,519 - 44,401,401 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	9	49,320,479 - 49,532,594 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	9	47,602,394 - 47,814,513 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	9	38,535,435 - 38,745,058 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	9	38,536,920 - 38,745,099 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	9	38,215,946 - 38,424,424 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	9	32,206,274 - 32,424,970 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	9	32,207,990 - 32,415,542 (-)	NCBI
Celera	9	33,486,356 - 33,697,667 (-)	NCBI		Celera
Cytogenetic Map	9	q21	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(-)-epigallocatechin 3-gallate (ISO)

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

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

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

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

2-butoxyethanol (ISO)

3-isobutyl-1-methyl-7H-xanthine (ISO)

4,4'-diaminodiphenylmethane (ISO)

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

6-propyl-2-thiouracil (EXP)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

amiodarone (ISO)

amitrole (EXP)

ammonium chloride (EXP)

auramine O (ISO)

benzene (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

caffeine (ISO)

cannabidiol (ISO)

carbon nanotube (ISO)

chlordecone (ISO)

cisplatin (ISO)

clofibrate (ISO)

coumestrol (ISO)

Cuprizon (EXP)

cyclosporin A (ISO)

dexamethasone (EXP,ISO)

dicrotophos (ISO)

dorsomorphin (ISO)

Enterolactone (ISO)

equol (ISO)

fulvestrant (ISO)

genistein (EXP)

gentamycin (EXP)

glutathione (EXP)

hydrogen peroxide (ISO)

indometacin (ISO)

ivermectin (ISO)

manganese atom (ISO)

manganese(0) (ISO)

manganese(II) chloride (ISO)

methimazole (EXP)

methyl methanesulfonate (ISO)

N-(6-acetamidohexyl)acetamide (ISO)

N-Nitrosopyrrolidine (ISO)

nitric oxide (ISO)

oxaliplatin (EXP)

ozone (ISO)

paracetamol (EXP,ISO)

PCB138 (ISO)

permethrin (EXP)

phenobarbital (ISO)

phenylmercury acetate (ISO)

pirinixic acid (ISO)

potassium chromate (ISO)

propiconazole (EXP)

resveratrol (ISO)

S-butyl-DL-homocysteine (S,R)-sulfoximine (ISO)

SB 431542 (ISO)

sodium arsenate (ISO)

succimer (ISO)

sulfadimethoxine (EXP)

testosterone (EXP)

tetrachloromethane (EXP,ISO)

theophylline (ISO)

thimerosal (ISO)

titanium dioxide (ISO)

topotecan (EXP)

Tributyltin oxide (ISO)

trichostatin A (ISO)

trovafloxacin (ISO)

tungsten (ISO)

valproic acid (ISO)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

DNA replication (NAS)

DNA replication initiation (IBA,IEA,ISO)

DNA replication, synthesis of primer (IBA,IEA,ISO)

Cellular Component

alpha DNA polymerase:primase complex (IBA,IEA,ISO,ISS)

Molecular Function

4 iron, 4 sulfur cluster binding (IEA,ISO,ISS)

DNA binding (IEA)

DNA/RNA hybrid binding (ISO,ISS)

metal ion binding (IEA)

protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

DNA replication pathway (IEA)

purine metabolic pathway (IEA)

pyrimidine metabolic pathway (IEA)

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.	KEGG: Kyoto Encyclopedia of Genes and Genomes	KEGG
3.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
4.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
5.	A mutation in subunit B of the DNA polymerase alpha-primase complex from Novikoff hepatoma cells concomitant with a conformational change and abnormal catalytic properties of the DNA polymerase alpha-primase complex.	Popanda O, etal., Mol Carcinog 2001 Aug;31(4):171-83.
6.	GOA pipeline	RGD automated data pipeline
7.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
9.	Comprehensive gene review and curation	RGD comprehensive gene curation

Additional References at PubMed

PMID:12477932

Genomics

Comparative Map Data

Prim2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	9	43,188,350 - 43,400,482 (-)	NCBI		GRCr8
mRatBN7.2	9	35,692,376 - 35,904,521 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	9	35,692,376 - 35,903,030 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	9	44,192,519 - 44,401,401 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	9	49,320,479 - 49,532,594 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	9	47,602,394 - 47,814,513 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	9	38,535,435 - 38,745,058 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	9	38,536,920 - 38,745,099 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	9	38,215,946 - 38,424,424 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	9	32,206,274 - 32,424,970 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	9	32,207,990 - 32,415,542 (-)	NCBI
Celera	9	33,486,356 - 33,697,667 (-)	NCBI		Celera
Cytogenetic Map	9	q21	NCBI

PRIM2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	6	57,221,540 - 57,646,850 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	6	57,314,805 - 57,646,850 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	6	57,179,603 - 57,513,376 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	6	57,290,381 - 57,621,335 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	6	57,290,380 - 57,621,334	NCBI
Celera	6	58,845,527 - 58,907,120 (+)	NCBI		Celera
Cytogenetic Map	6	p11.2	NCBI
HuRef	5	21,733,697 - 21,771,156 (-)	NCBI		HuRef
HuRef	6	57,016,307 - 57,236,736 (+)	NCBI		HuRef
CHM1_1	6	57,179,974 - 57,645,053 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	6	57,060,566 - 57,485,715 (+)	NCBI		T2T-CHM13v2.0

Prim2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	1	33,492,889 - 33,708,867 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	1	33,492,891 - 33,708,876 (-)	Ensembl		GRCm39 Ensembl
GRCm38	1	33,453,808 - 33,669,808 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	1	33,453,810 - 33,669,795 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	1	33,510,656 - 33,726,603 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	1	33,398,357 - 33,614,304 (-)	NCBI		MGSCv36	mm8
Celera	1	33,228,568 - 33,444,813 (-)	NCBI		Celera
Cytogenetic Map	1	B	NCBI
cM Map	1	12.7	NCBI

Prim2
(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_004955502	2,647,462 - 2,898,919 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955502	2,642,328 - 2,898,919 (-)	NCBI	ChiLan1.0	ChiLan1.0

PRIM2
(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	71,692,575 - 72,119,835 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	6	67,668,942 - 68,000,220 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	6	56,875,331 - 56,884,118 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	6	58,503,286 - 58,514,832 (+)	NCBI	panpan1.1	PanPan1.1	panPan2

PRIM2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	12	24,504,202 - 24,811,942 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	12	24,504,700 - 24,811,924 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	12	24,432,446 - 24,739,676 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	12	25,042,105 - 25,349,960 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	12	25,042,169 - 25,349,957 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	12	24,539,462 - 24,846,864 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	12	24,641,103 - 24,948,387 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	12	24,772,113 - 25,079,798 (+)	NCBI		UU_Cfam_GSD_1.0

Prim2
(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_024404946	59,962,253 - 60,223,544 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936476	3,737,061 - 3,996,910 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936476	3,736,663 - 3,997,936 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

PRIM2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	7	28,274,627 - 28,631,514 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	7	28,274,626 - 28,566,633 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	7	32,750,198 - 33,023,012 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

PRIM2
(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	17	13,995,488 - 14,304,161 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	17	13,995,401 - 14,304,156 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666058	20,315,866 - 20,455,696 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Prim2
(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_004624753	19,014,579 - 19,447,714 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Prim2
1159 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	342
Count of miRNA genes:	122
Interacting mature miRNAs:	127
Transcripts:	ENSRNOT00000016828, ENSRNOT00000060452
Prediction methods:	Microtar, 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 (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
9589055	Scfw5	Subcutaneous fat weight QTL 5	5.55	0.001	subcutaneous adipose mass (VT:1000472)	abdominal subcutaneous fat pad weight (CMO:0002069)	9	1	37999212	Rat
7411592	Foco8	Food consumption QTL 8	7.4	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	9	1	37999212	Rat
9589158	Gluco65	Glucose level QTL 65	6.82	0.001	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	9	1	37999212	Rat
1300124	Cm4	Cardiac mass QTL 4	3.55		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	9	1	40594091	Rat
1298088	Edpm11	Estrogen-dependent pituitary mass QTL 11	2.5		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	9	1	43718459	Rat
1641911	Alcrsp13	Alcohol response QTL 13			response to alcohol trait (VT:0010489)	brain neurotensin receptor 1 density (CMO:0002068)	9	1	43718459	Rat
10054125	Srcrt7	Stress Responsive Cort QTL 7	3.33	0.0011	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	9	1	87073594	Rat
1331757	Cdexp1	CD45RC expression in CD8 T cells QTL 1	4.3		CD8-positive T cell quantity (VT:0008077)	blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)	9	1024537	67509080	Rat
1354650	Despr5	Despair related QTL 5	4.01	0.0017	locomotor behavior trait (VT:0001392)	amount of time spent in voluntary immobility (CMO:0001043)	9	1254084	46254084	Rat
2303559	Gluco54	Glucose level QTL 54	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	9	1254084	46254084	Rat
61425	Cia15	Collagen induced arthritis QTL 15	4.6		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	9	5109826	42921101	Rat
631211	Bw4	Body weight QTL4	5.31		retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	9	5109826	50109826	Rat
11353947	Bp392	Blood pressure QTL 392			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	9	7283252	52283252	Rat
9589133	Insul26	Insulin level QTL 26	17.96	0.001	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	9	8952560	53952560	Rat
7411609	Foco16	Food consumption QTL 16	25.6	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	9	8952560	53952560	Rat
1600365	Mcs20	Mammary carcinoma susceptibility QTL 20	3		mammary gland integrity trait (VT:0010552)	mammary tumor growth rate (CMO:0000344)	9	13533770	42791750	Rat
724543	Cm20	Cardiac mass QTL 20	3.9		heart mass (VT:0007028)	calculated heart weight (CMO:0000073)	9	16961398	40594091	Rat
631680	Cm11	Cardiac mass QTL 11	3.1	0.00089	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	9	20430519	65430519	Rat
70186	Niddm26	Non-insulin dependent diabetes mellitus QTL 26	3.87		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	9	22071169	86369743	Rat
631643	Bp120	Blood pressure QTL 120	3	0.004	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	9	22071200	67071200	Rat
1598823	Memor16	Memory QTL 16	1.9		exploratory behavior trait (VT:0010471)	difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)	9	22133322	49968732	Rat
7207805	Bmd88	Bone mineral density QTL 88	4		femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	9	23754024	58157242	Rat
1300180	Bw14	Body weight QTL 14	3.776		body mass (VT:0001259)	body weight (CMO:0000012)	9	23754024	61381613	Rat
7207814	Bmd91	Bone mineral density QTL 91	3.5		femur size trait (VT:1000369)	femoral neck cross-sectional area (CMO:0001697)	9	23754144	83851531	Rat
70218	Cm28	Cardiac mass QTL 28	8.3	0.0001	heart mass (VT:0007028)	heart wet weight (CMO:0000069)	9	25268044	79271759	Rat
724544	Uae9	Urinary albumin excretion QTL 9	4.5		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	9	25268044	114175309	Rat
731164	Uae25	Urinary albumin excretion QTL 25	3.5	0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	9	25661188	100929786	Rat
1641894	Alcrsp12	Alcohol response QTL 12			response to alcohol trait (VT:0010489)	brain neurotensin receptor 1 density (CMO:0002068)	9	27468639	72468639	Rat
7411656	Foco26	Food consumption QTL 26	9.8	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	9	32535505	77535505	Rat
7411571	Bw138	Body weight QTL 138	14.3	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	9	32535505	77535505	Rat

Markers in Region

RH133423

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	9	35,692,592 - 35,692,776 (-)	MAPPER	mRatBN7.2
Rnor_6.0	9	38,744,658 - 38,744,841	NCBI	Rnor6.0
Rnor_5.0	9	38,424,024 - 38,424,207	UniSTS	Rnor5.0
RGSC_v3.4	9	32,206,482 - 32,206,665	UniSTS	RGSC3.4
Celera	9	33,486,564 - 33,486,747	UniSTS
RH 3.4 Map	9	355.89	UniSTS
Cytogenetic Map	9	q21	UniSTS

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	2	24	25	18	18	18			51	28	40	4
Low	1	19	32	23	1	23	8	11	23	7	1	7	8
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001024762	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001399183	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001399184	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006244690	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006244691	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017596335	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017596336	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017596337	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039083201	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039083202	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039083205	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039083206	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039083207	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063266877	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_010054582	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AJ011607	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC097454	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473965	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000009	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000016828 ⟹ ENSRNOP00000016828

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	9	35,692,376 - 35,895,497 (-)	Ensembl
Rnor_6.0 Ensembl	9	38,544,398 - 38,745,099 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000060452 ⟹ ENSRNOP00000057197

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	9	35,692,388 - 35,903,030 (-)	Ensembl
Rnor_6.0 Ensembl	9	38,536,920 - 38,745,048 (+)	Ensembl

RefSeq Acc Id:

NM_001024762 ⟹ NP_001019933

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	9	43,188,359 - 43,400,454 (-)	NCBI
mRatBN7.2	9	35,692,385 - 35,904,494 (-)	NCBI
Rnor_6.0	9	38,535,456 - 38,745,049 (+)	NCBI
Rnor_5.0	9	38,215,946 - 38,424,424 (+)	NCBI
RGSC_v3.4	9	32,206,274 - 32,424,970 (-)	RGD
Celera	9	33,486,356 - 33,697,667 (-)	RGD

Sequence:

show sequence

GTTCGCCCCCCAACCCTGCCTTGGGTACCGATCCAACCTGGCCCCTCAAGTCACCGGAGGACTA
TATATACCCTCTTCCACTGAGGCCAGCCAGTATAGGCCAGCTAGGGGCACAGGATCCACAGGCA
GGCAACAGAGTCAGGGTGTAATCAGGGTGCTGAGAAGGTCCAGGGAGCTGGGGATCCAAGTCAA
GTCATTGTTGCAAGTCTCTGTATTTCCTGGGAAGAGAAAGACAACACAAAGGAGGACCCATCAG
CGCATCTGTCTTCTGAAGGCTGCCAGTATCTTGAATTGAATCGACGGTTGTCTTTCAGTGGTCA
AGATGCAGTTCTCAGGAAGGACCCGGAAGAAGCTGAGATTGGCAGGTGACCAGAGAAACGCTTG
TTACCCTCACAGCCTTCAGTTCTATCTGCAGCCACCTACTGAAAACATATCATTGACAGAGTTT
GAAAGCTTGGCTTTTGATAGAGTAAAATTGCTTAAAGCAATTGAGAATCTTGGTGTGAGCTATG
TGAAAGGAACCGAACAGTACCAGAGTAAACTGGAGGCTGAGATTCGAAAGCTCAAGTTTTCGTA
CAGGGAGAACCTGGAGGATGAGTACGAGCCTCGGAGGAGGGACCACATCTCCCACTTCATCCTG
CGCCTCGCTTACTGCCAGTCGGAAGATCTTAGACGGTGGTTTATTCAACAGGAGATGGATCTGC
TTCGGTTCCGATTCAGTATTTTACCCAAGGATAAAGTCCAGAGTTTCTTGAAGGATACTCACTT
GCATTTTGAGGCTATCAGTGATGAGGAGAAGACCCTTCGGGAACAGGATATCATGGCGTCCTCT
CCCAGCCTAAGTGGGGTCAGGTGGGAATCGGAGTCAGTGTATAAGGTCCCCTTTGCTGACGCTC
TGGACCTGTTCAGAGGAAGGAAAGTCTACTTGGAAGACGGCTTTGCTTATGTGCCACTTAAGGA
CATTGTGGCCATTATCCTGAACGAGTTTAGAGCCACGCTGTCTAAGGCCTTGGCACTAACAGCC
AGGTCCCTGCCTGCTGTGCAGTCCGATGAACGACTTCAGCCTCTGCTCAGCCACCTCAGTCATT
CTTACACCGGCCAAGATTATAGTACCCAGAAGAGCACCGGGAAGATTTCCTTAGATCAGATTGA
TTCGCTTTCAACAAAATCCTTCCCACCTTGCATGCGTCAGCTGCACAAGGCGCTGAGGGAAAAC
CACCATCTTCGTCATGGAGGCCGGATGCAGTATGGCCTGTTCCTCAAGGGCATTGGGCTAACGT
TGGAGCAAGCATTGCAGTTCTGGAAGCAAGAGTTTATCAAAGGAAAGATGGACCCAGACAAGTT
TGATAAAGGTTACTCTTACAATATCCGACATAGCTTTGGAAAGGAAGGCAAGAGGACAGACTAT
ACGCCATTCAGTTGCATGAAGATTATCCTGACCAACCCACCAAGCCAGGGGGATTTCCATGGGT
GCCCATTCCGTCACAGTGATGCAGAGCTGCTGAAGCAGAAGATGCAGACCTACAAGATCCCTGC
CTCGGGGATCAGCCAGGTGGACGATTGTGGCTTTTCTTTGAATCATCCGAATCAGTTCTTTTTT
GAGAGCCAGCGAATCCTAACTGGTGGCAAAGATATCAAGAAGGAAGCAAGCCACCCAGAAACGC
CTCAGCACAAACCCAGCACCCAGAAGACCAAGGATGCCACGTCTGCTCTGGCCTCTCTAGATTC
CTCCCTGGAAATGGATCTGGAGGGGCTAGAAGACTACTTTAGTAAATGACGTGGCCCCTGGAGC
AACTGGAGCAAATACATTCCTGTTTGAAAGGTTTGCCTTTGTAAACCTTTCTCTTCCTACCCAC
GCATGCTCACACATGTACTGGGAAAGCAGGCTTGCTTCCACCTTACTTTTGACAGAATGAAAAA
GGAAGAGTTCCTATGGAAACCTTTCATTGAATATTTCGTTTTGAATCCTGTTCCAGAAAATTTA
AAACAGTACTCAGGGACTAAAATCCTCAAGCAGCAATACAACTAAAACTAACTTTTAAAGTTTC
ACCTAGTTTTGGCCAAGTCTTCTTTTGGATCGATTTTGCTAATAAACAACATGTATATGACTAT
AAAAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

NM_001399183 ⟹ NP_001386112

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	9	43,188,350 - 43,391,478 (-)	NCBI
mRatBN7.2	9	35,692,376 - 35,895,518 (-)	NCBI

RefSeq Acc Id:

NM_001399184 ⟹ NP_001386113

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	9	43,188,350 - 43,391,478 (-)	NCBI
mRatBN7.2	9	35,692,376 - 35,895,518 (-)	NCBI

RefSeq Acc Id:

XM_006244690 ⟹ XP_006244752

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	9	43,188,350 - 43,391,467 (-)	NCBI
mRatBN7.2	9	35,692,376 - 35,895,520 (-)	NCBI
Rnor_6.0	9	38,544,376 - 38,745,058 (+)	NCBI
Rnor_5.0	9	38,215,946 - 38,424,424 (+)	NCBI

Sequence:

show sequence

TTAGCGCCTCACTTCCGCTTCCGGCCCCAAATGAACTCTCCCGCCACAGGGAAAGAGCGGCTGT
CAGCGCGGGTGTTTCGTCCAGTTTGGTTGCTGGCTGGTTAAAGAATATCCTGCGGGTTTGTTTG
GAGCGGAGAGAAACTGTGGGGTTGGAAGCTTGCGAGTTGACTTGGTGGGACCGAGTGGCAGGTG
GTCAAGATGCAGTTCTCAGGAAGGACCCGGAAGAAGCTGAGATTGGCAGGTGACCAGAGAAACG
CTTGTTACCCTCACAGCCTTCAGTTCTATCTGCAGCCACCTACTGAAAACATATCATTGACAGA
GTTTGAAAGCTTGGCTTTTGATAGAGTAAAATTGCTTAAAGCAATTGAGAATCTTGGTGTGAGC
TATGTGAAAGGAACCGAACAGTACCAGAGTAAACTGGAGGCTGAGATTCGAAAGCTCAAGTTTT
CGTACAGGGAGAACCTGGAGGATGAGTACGAGCCTCGGAGGAGGGACCACATCTCCCACTTCAT
CCTGCGCCTCGCTTACTGCCAGTCGGAAGATCTTAGACGGTGGTTTATTCAACAGGAGATGGAT
CTGCTTCGGTTCCGATTCAGTATTTTACCCAAGGATAAAGTCCAGAGTTTCTTGAAGGATACTC
ACTTGCATTTTGAGGCTATCAGTGATGAGGAGAAGACCCTTCGGGAACAGGATATCATGGCGTC
CTCTCCCAGCCTAAGTGGGGTCAGGTGGGAATCGGAGTCAGTGTATAAGGTCCCCTTTGCTGAC
GCTCTGGACCTGTTCAGAGGAAGGAAAGTCTACTTGGAAGACGGCTTTGCTTATGTGCCACTTA
AGGACATTGTGGCCATTATCCTGAACGAGTTTAGAGCCACGCTGTCTAAGGCCTTGGCACTAAC
AGCCAGGTCCCTGCCTGCTGTGCAGTCCGATGAACGACTTCAGCCTCTGCTCAGCCACCTCAGT
CATTCTTACACCGGCCAAGATTATAGTACCCAGAAGAGCACCGGGAAGATTTCCTTAGATCAGA
TTGATTCGCTTTCAACAAAATCCTTCCCACCTTGCATGCGTCAGCTGCACAAGGCGCTGAGGGA
AAACCACCATCTTCGTCATGGAGGCCGGATGCAGTATGGCCTGTTCCTCAAGGGCATTGGGCTA
ACGTTGGAGCAAGCATTGCAGTTCTGGAAGCAAGAGTTTATCAAAGGAAAGATGGACCCAGACA
AGTTTGATAAAGGTTACTCTTACAATATCCGACATAGCTTTGGAAAGGAAGGCAAGAGGACAGA
CTATACGCCATTCAGTTGCATGAAGATTATCCTGACCAACCCACCAAGCCAGGGGGATTTCCAT
GGGTGCCCATTCCGTCACAGTGATGCAGAGCTGCTGAAGCAGAAGATGCAGACCTACAAGATCC
CTGCCTCGGGGATCAGCCAGATTTTGGATTTGGTAAAGGGGAATCATTACCAGGTGGCCTGTCA
GAAGTACTTCGAGATGACGCACAATGTGGACGATTGTGGCTTTTCTTTGAATCATCCGAATCAG
TTCTTTTTTGAGAGCCAGCGAATCCTAACTGGTGGCAAAGATATCAAGAAGGAAGCAAGCCACC
CAGAAACGCCTCAGCACAAACCCAGCACCCAGAAGACCAAGGATGCCACGTCTGCTCTGGCCTC
TCTAGATTCCTCCCTGGAAATGGATCTGGAGGGGCTAGAAGACTACTTTAGTAAATGACGTGGC
CCCTGGAGCAACTGGAGCAAATACATTCCTGTTTGAAAGGTTTGCCTTTGTAAACCTTTCTCTT
CCTACCCACGCATGCTCACACATGTACTGGGAAAGCAGGCTTGCTTCCACCTTACTTTTGACAG
AATGAAAAAGGAAGAGTTCCTATGGAAACCTTTCATTGAATATTTCGTTTTGAATCCTGTTCCA
GAAAATTTAAAACAGTACTCAGGGACTAAAATCCTCAAGCAGCAATACAACTAAAACTAACTTT
TAAAGTTTCACCTAGTTTTGGCCAAGTCTTCTTTTGGATCGATTTTGCTAATAAACAACATGTA
TATGACTATATCCGAGTAA

hide sequence

RefSeq Acc Id:

XM_006244691 ⟹ XP_006244753

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	9	43,188,350 - 43,400,472 (-)	NCBI
mRatBN7.2	9	35,692,376 - 35,904,496 (-)	NCBI
Rnor_6.0	9	38,535,435 - 38,745,058 (+)	NCBI
Rnor_5.0	9	38,215,946 - 38,424,424 (+)	NCBI

Sequence:

show sequence

GGGATAGAGCCAGGTGAGCGGGTTCGCCCCCCAACCCTGCCTTGGGTACCGATCCAACCTGGCC
CCTCAAGTCACCGGAGGACTATATATACCCTCTTCCACTGAGGCCAGCCAGTATAGGCCAGCTA
GGGGCACAGGATCCACAGGCAGGCAACAGAGTCAGGGTGGTCAAGATGCAGTTCTCAGGAAGGA
CCCGGAAGAAGCTGAGATTGGCAGGTGACCAGAGAAACGCTTGTTACCCTCACAGCCTTCAGTT
CTATCTGCAGCCACCTACTGAAAACATATCATTGACAGAGTTTGAAAGCTTGGCTTTTGATAGA
GTAAAATTGCTTAAAGCAATTGAGAATCTTGGTGTGAGCTATGTGAAAGGAACCGAACAGTACC
AGAGTAAACTGGAGGCTGAGATTCGAAAGCTCAAGTTTTCGTACAGGGAGAACCTGGAGGATGA
GTACGAGCCTCGGAGGAGGGACCACATCTCCCACTTCATCCTGCGCCTCGCTTACTGCCAGTCG
GAAGATCTTAGACGGTGGTTTATTCAACAGGAGATGGATCTGCTTCGGTTCCGATTCAGTATTT
TACCCAAGGATAAAGTCCAGAGTTTCTTGAAGGATACTCACTTGCATTTTGAGGCTATCAGTGA
TGAGGAGAAGACCCTTCGGGAACAGGATATCATGGCGTCCTCTCCCAGCCTAAGTGGGGTCAGG
TGGGAATCGGAGTCAGTGTATAAGGTCCCCTTTGCTGACGCTCTGGACCTGTTCAGAGGAAGGA
AAGTCTACTTGGAAGACGGCTTTGCTTATGTGCCACTTAAGGACATTGTGGCCATTATCCTGAA
CGAGTTTAGAGCCACGCTGTCTAAGGCCTTGGCACTAACAGCCAGGTCCCTGCCTGCTGTGCAG
TCCGATGAACGACTTCAGCCTCTGCTCAGCCACCTCAGTCATTCTTACACCGGCCAAGATTATA
GTACCCAGAAGAGCACCGGGAAGATTTCCTTAGATCAGATTGATTCGCTTTCAACAAAATCCTT
CCCACCTTGCATGCGTCAGCTGCACAAGGCGCTGAGGGAAAACCACCATCTTCGTCATGGAGGC
CGGATGCAGTATGGCCTGTTCCTCAAGGGCATTGGGCTAACGTTGGAGCAAGCATTGCAGTTCT
GGAAGCAAGAGTTTATCAAAGGAAAGATGGACCCAGACAAGTTTGATAAAGGTTACTCTTACAA
TATCCGACATAGCTTTGGAAAGGAAGGCAAGAGGACAGACTATACGCCATTCAGTTGCATGAAG
ATTATCCTGACCAACCCACCAAGCCAGGGGGATTTCCATGGGTGCCCATTCCGTCACAGTGATG
CAGAGCTGCTGAAGCAGAAGATGCAGACCTACAAGATCCCTGCCTCGGGGATCAGCCAGATTTT
GGATTTGGTAAAGGGGAATCATTACCAGGTGGCCTGTCAGAAGTACTTCGAGATGACGCACAAT
GTGGACGATTGTGGCTTTTCTTTGAATCATCCGAATCAGTTCTTTTTTGAGAGCCAGCGAATCC
TAACTGGTGGCAAAGATATCAAGAAGGAAGCAAGCCACCCAGAAACGCCTCAGCACAAACCCAG
CACCCAGAAGACCAAGGATGCCACGTCTGCTCTGGCCTCTCTAGATTCCTCCCTGGAAATGGAT
CTGGAGGGGCTAGAAGACTACTTTAGTAAATGACGTGGCCCCTGGAGCAACTGGAGCAAATACA
TTCCTGTTTGAAAGGTTTGCCTTTGTAAACCTTTCTCTTCCTACCCACGCATGCTCACACATGT
ACTGGGAAAGCAGGCTTGCTTCCACCTTACTTTTGACAGAATGAAAAAGGAAGAGTTCCTATGG
AAACCTTTCATTGAATATTTCGTTTTGAATCCTGTTCCAGAAAATTTAAAACAGTACTCAGGGA
CTAAAATCCTCAAGCAGCAATACAACTAAAACTAACTTTTAAAGTTTCACCTAGTTTTGGCCAA
GTCTTCTTTTGGATCGATTTTGCTAATAAACAACATGTATATGACTATATCCGAGTAA

hide sequence

RefSeq Acc Id:

XM_017596335 ⟹ XP_017451824

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	9	43,188,350 - 43,400,482 (-)	NCBI
mRatBN7.2	9	35,692,376 - 35,904,496 (-)	NCBI
Rnor_6.0	9	38,535,435 - 38,745,058 (+)	NCBI

Sequence:

show sequence

GGGATAGAGCCAGGTGAGCGGGTTCGCCCCCCAACCCTGCCTTGGGTACCGATCCAACCTGGCC
CCTCAAGTCACCGGAGGACTATATATACCCTCTTCCACTGAGGCCAGCCAGTATAGGCCAGCTA
GGGGCACAGGATCCACAGGCAGGCAACAGAGTCAGGTCTCTGTATTTCCTGGGAAGAGAAAGAC
AACACAAAGGAGGACCCATCAGCGCATCTGTCTTCTGAAGGCTGCCAGTATCTTGAATTGAATC
GACGGTTGTCTTTCAGTGGTCAAGATGCAGTTCTCAGGAAGGACCCGGAAGAAGCTGAGATTGG
CAGGTGACCAGAGAAACGCTTGTTACCCTCACAGCCTTCAGTTCTATCTGCAGCCACCTACTGA
AAACATATCATTGACAGAGTTTGAAAGCTTGGCTTTTGATAGAGTAAAATTGCTTAAAGCAATT
GAGAATCTTGGTGTGAGCTATGTGAAAGGAACCGAACAGTACCAGAGTAAACTGGAGGCTGAGA
TTCGAAAGCTCAAGTTTTCGTACAGGGAGAACCTGGAGGATGAGTACGAGCCTCGGAGGAGGGA
CCACATCTCCCACTTCATCCTGCGCCTCGCTTACTGCCAGTCGGAAGATCTTAGACGGTGGTTT
ATTCAACAGGAGATGGATCTGCTTCGGTTCCGATTCAGTATTTTACCCAAGGATAAAGTCCAGA
GTTTCTTGAAGGATACTCACTTGCATTTTGAGGCTATCAGTGATGAGGAGAAGACCCTTCGGGA
ACAGGATATCATGGCGTCCTCTCCCAGCCTAAGTGGGGTCAGGTGGGAATCGGAGTCAGTGTAT
AAGGTCCCCTTTGCTGACGCTCTGGACCTGTTCAGAGGAAGGAAAGTCTACTTGGAAGACGGCT
TTGCTTATGTGCCACTTAAGGACATTGTGGCCATTATCCTGAACGAGTTTAGAGCCACGCTGTC
TAAGGCCTTGGCACTAACAGCCAGGTCCCTGCCTGCTGTGCAGTCCGATGAACGACTTCAGCCT
CTGCTCAGCCACCTCAGTCATTCTTACACCGGCCAAGATTATAGTACCCAGAAGAGCACCGGGA
AGATTTCCTTAGATCAGATTGATTCGCTTTCAACAAAATCCTTCCCACCTTGCATGCGTCAGCT
GCACAAGGCGCTGAGGGAAAACCACCATCTTCGTCATGGAGGCCGGATGCAGTATGGCCTGTTC
CTCAAGGGCATTGGGCTAACGTTGGAGCAAGCATTGCAGTTCTGGAAGCAAGAGTTTATCAAAG
GAAAGATGGACCCAGACAAGTTTGATAAAGGTTACTCTTACAATATCCGACATAGCTTTGGAAA
GGAAGGCAAGAGGACAGACTATACGCCATTCAGTTGCATGAAGATTATCCTGACCAACCCACCA
AGCCAGGGGGATTTCCATGGGTGCCCATTCCGTCACAGTGATGCAGAGCTGCTGAAGCAGAAGA
TGCAGACCTACAAGATCCCTGCCTCGGGGATCAGCCAGATTTTGGATTTGGTAAAGGGGAATCA
TTACCAGGTGGCCTGTCAGAAGTACTTCGAGATGACGCACAATGTGGACGATTGTGGCTTTTCT
TTGAATCATCCGAATCAGTTCTTTTTTGAGAGCCAGCGAATCCTAACTGGTGGCAAAGATATCA
AGAAGGAAGCAAGCCACCCAGAAACGCCTCAGCACAAACCCAGCACCCAGAAGACCAAGGATGC
CACGTCTGCTCTGGCCTCTCTAGATTCCTCCCTGGAAATGGATCTGGAGGGGCTAGAAGACTAC
TTTAGTAAATGACGTGGCCCCTGGAGCAACTGGAGCAAATACATTCCTGTTTGAAAGGTTTGCC
TTTGTAAACCTTTCTCTTCCTACCCACGCATGCTCACACATGTACTGGGAAAGCAGGCTTGCTT
CCACCTTACTTTTGACAGAATGAAAAAGGAAGAGTTCCTATGGAAACCTTTCATTGAATATTTC
GTTTTGAATCCTGTTCCAGAAAATTTAAAACAGTACTCAGGGACTAAAATCCTCAAGCAGCAAT
ACAACTAAAACTAACTTTTAAAGTTTCACCTAGTTTTGGCCAAGTCTTCTTTTGGATCGATTTT
GCTAATAAACAACATGTATATGACTATATCCGAGTAA

hide sequence

RefSeq Acc Id:

XM_039083201 ⟹ XP_038939129

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	9	43,188,350 - 43,400,472 (-)	NCBI
mRatBN7.2	9	35,692,376 - 35,904,496 (-)	NCBI

RefSeq Acc Id:

XM_039083202 ⟹ XP_038939130

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	9	43,188,350 - 43,398,623 (-)	NCBI
mRatBN7.2	9	35,692,376 - 35,904,521 (-)	NCBI

RefSeq Acc Id:

XM_039083205 ⟹ XP_038939133

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	9	43,188,350 - 43,390,434 (-)	NCBI
mRatBN7.2	9	35,692,376 - 35,894,659 (-)	NCBI

RefSeq Acc Id:

XM_039083206 ⟹ XP_038939134

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	9	43,188,350 - 43,338,069 (-)	NCBI
mRatBN7.2	9	35,692,376 - 35,842,105 (-)	NCBI

RefSeq Acc Id:

XM_039083207 ⟹ XP_038939135

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	9	43,188,350 - 43,260,785 (-)	NCBI
mRatBN7.2	9	35,692,376 - 35,764,559 (-)	NCBI

RefSeq Acc Id:

XM_063266877 ⟹ XP_063122947

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	9	43,188,350 - 43,374,795 (-)	NCBI

RefSeq Acc Id:

XR_010054582

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	9	43,247,372 - 43,400,476 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001019933	(Get FASTA)	NCBI Sequence Viewer
	NP_001386112	(Get FASTA)	NCBI Sequence Viewer
	NP_001386113	(Get FASTA)	NCBI Sequence Viewer
	XP_006244752	(Get FASTA)	NCBI Sequence Viewer
	XP_006244753	(Get FASTA)	NCBI Sequence Viewer
	XP_017451824	(Get FASTA)	NCBI Sequence Viewer
	XP_038939129	(Get FASTA)	NCBI Sequence Viewer
	XP_038939130	(Get FASTA)	NCBI Sequence Viewer
	XP_038939133	(Get FASTA)	NCBI Sequence Viewer
	XP_038939134	(Get FASTA)	NCBI Sequence Viewer
	XP_038939135	(Get FASTA)	NCBI Sequence Viewer
	XP_063122947	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH97454	(Get FASTA)	NCBI Sequence Viewer
	CAA09722	(Get FASTA)	NCBI Sequence Viewer
	EDL99319	(Get FASTA)	NCBI Sequence Viewer
	EDL99320	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000016828
	ENSRNOP00000016828.4
	ENSRNOP00000057197
	ENSRNOP00000057197.2
	ENSRNOP00055001955
	ENSRNOP00060038389
	ENSRNOP00065014190
GenBank Protein	O89044	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	NP_001019933 ⟸ NM_001024762
- Peptide Label:	isoform 2
- UniProtKB:	Q4V8C0 (UniProtKB/TrEMBL)
- Sequence:	show sequence MQFSGRTRKKLRLAGDQRNACYPHSLQFYLQPPTENISLTEFESLAFDRVKLLKAIENLGVSYV KGTEQYQSKLEAEIRKLKFSYRENLEDEYEPRRRDHISHFILRLAYCQSEDLRRWFIQQEMDLL RFRFSILPKDKVQSFLKDTHLHFEAISDEEKTLREQDIMASSPSLSGVRWESESVYKVPFADAL DLFRGRKVYLEDGFAYVPLKDIVAIILNEFRATLSKALALTARSLPAVQSDERLQPLLSHLSHS YTGQDYSTQKSTGKISLDQIDSLSTKSFPPCMRQLHKALRENHHLRHGGRMQYGLFLKGIGLTL EQALQFWKQEFIKGKMDPDKFDKGYSYNIRHSFGKEGKRTDYTPFSCMKIILTNPPSQGDFHGC PFRHSDAELLKQKMQTYKIPASGISQVDDCGFSLNHPNQFFFESQRILTGGKDIKKEASHPETP QHKPSTQKTKDATSALASLDSSLEMDLEGLEDYFSK hide sequence

RefSeq Acc Id:	XP_006244753 ⟸ XM_006244691
- Peptide Label:	isoform X1
- UniProtKB:	O89044 (UniProtKB/Swiss-Prot), A6IN89 (UniProtKB/TrEMBL)
- Sequence:	show sequence MQFSGRTRKKLRLAGDQRNACYPHSLQFYLQPPTENISLTEFESLAFDRVKLLKAIENLGVSYV KGTEQYQSKLEAEIRKLKFSYRENLEDEYEPRRRDHISHFILRLAYCQSEDLRRWFIQQEMDLL RFRFSILPKDKVQSFLKDTHLHFEAISDEEKTLREQDIMASSPSLSGVRWESESVYKVPFADAL DLFRGRKVYLEDGFAYVPLKDIVAIILNEFRATLSKALALTARSLPAVQSDERLQPLLSHLSHS YTGQDYSTQKSTGKISLDQIDSLSTKSFPPCMRQLHKALRENHHLRHGGRMQYGLFLKGIGLTL EQALQFWKQEFIKGKMDPDKFDKGYSYNIRHSFGKEGKRTDYTPFSCMKIILTNPPSQGDFHGC PFRHSDAELLKQKMQTYKIPASGISQILDLVKGNHYQVACQKYFEMTHNVDDCGFSLNHPNQFF FESQRILTGGKDIKKEASHPETPQHKPSTQKTKDATSALASLDSSLEMDLEGLEDYFSK hide sequence

RefSeq Acc Id:	XP_006244752 ⟸ XM_006244690
- Peptide Label:	isoform X1
- UniProtKB:	O89044 (UniProtKB/Swiss-Prot), A6IN89 (UniProtKB/TrEMBL)
- Sequence:	show sequence MQFSGRTRKKLRLAGDQRNACYPHSLQFYLQPPTENISLTEFESLAFDRVKLLKAIENLGVSYV KGTEQYQSKLEAEIRKLKFSYRENLEDEYEPRRRDHISHFILRLAYCQSEDLRRWFIQQEMDLL RFRFSILPKDKVQSFLKDTHLHFEAISDEEKTLREQDIMASSPSLSGVRWESESVYKVPFADAL DLFRGRKVYLEDGFAYVPLKDIVAIILNEFRATLSKALALTARSLPAVQSDERLQPLLSHLSHS YTGQDYSTQKSTGKISLDQIDSLSTKSFPPCMRQLHKALRENHHLRHGGRMQYGLFLKGIGLTL EQALQFWKQEFIKGKMDPDKFDKGYSYNIRHSFGKEGKRTDYTPFSCMKIILTNPPSQGDFHGC PFRHSDAELLKQKMQTYKIPASGISQILDLVKGNHYQVACQKYFEMTHNVDDCGFSLNHPNQFF FESQRILTGGKDIKKEASHPETPQHKPSTQKTKDATSALASLDSSLEMDLEGLEDYFSK hide sequence

RefSeq Acc Id:	XP_017451824 ⟸ XM_017596335
- Peptide Label:	isoform X1
- UniProtKB:	O89044 (UniProtKB/Swiss-Prot), A6IN89 (UniProtKB/TrEMBL)
- Sequence:	show sequence MQFSGRTRKKLRLAGDQRNACYPHSLQFYLQPPTENISLTEFESLAFDRVKLLKAIENLGVSYV KGTEQYQSKLEAEIRKLKFSYRENLEDEYEPRRRDHISHFILRLAYCQSEDLRRWFIQQEMDLL RFRFSILPKDKVQSFLKDTHLHFEAISDEEKTLREQDIMASSPSLSGVRWESESVYKVPFADAL DLFRGRKVYLEDGFAYVPLKDIVAIILNEFRATLSKALALTARSLPAVQSDERLQPLLSHLSHS YTGQDYSTQKSTGKISLDQIDSLSTKSFPPCMRQLHKALRENHHLRHGGRMQYGLFLKGIGLTL EQALQFWKQEFIKGKMDPDKFDKGYSYNIRHSFGKEGKRTDYTPFSCMKIILTNPPSQGDFHGC PFRHSDAELLKQKMQTYKIPASGISQILDLVKGNHYQVACQKYFEMTHNVDDCGFSLNHPNQFF FESQRILTGGKDIKKEASHPETPQHKPSTQKTKDATSALASLDSSLEMDLEGLEDYFSK hide sequence

RefSeq Acc Id:

ENSRNOP00000057197 ⟸ ENSRNOT00000060452

RefSeq Acc Id:

ENSRNOP00000016828 ⟸ ENSRNOT00000016828

RefSeq Acc Id:	XP_038939130 ⟸ XM_039083202
- Peptide Label:	isoform X1
- UniProtKB:	O89044 (UniProtKB/Swiss-Prot), A6IN89 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038939129 ⟸ XM_039083201
- Peptide Label:	isoform X1
- UniProtKB:	O89044 (UniProtKB/Swiss-Prot), A6IN89 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038939133 ⟸ XM_039083205
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038939134 ⟸ XM_039083206
- Peptide Label:	isoform X4

RefSeq Acc Id:	XP_038939135 ⟸ XM_039083207
- Peptide Label:	isoform X5

RefSeq Acc Id:	NP_001386113 ⟸ NM_001399184
- Peptide Label:	isoform 1
- UniProtKB:	O89044 (UniProtKB/Swiss-Prot), A6IN89 (UniProtKB/TrEMBL)

RefSeq Acc Id:	NP_001386112 ⟸ NM_001399183
- Peptide Label:	isoform 1
- UniProtKB:	O89044 (UniProtKB/Swiss-Prot), A6IN89 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_063122947 ⟸ XM_063266877
- Peptide Label:	isoform X3

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-O89044-F1-model_v2	AlphaFold	O89044	1-507	view protein structure

Transcriptome

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

Promoters

RGD ID:

13696599

Promoter ID:

EPDNEW_R7118

Type:

multiple initiation site

Name:

Prim2_1

Description:

DNA primase subunit 2

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	9	38,544,413 - 38,544,473	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:631433	AgrOrtholog
BioCyc Gene	G2FUF-27880	BioCyc
Ensembl Genes	ENSRNOG00000012486	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ENSRNOG00055001642	UniProtKB/Swiss-Prot
	ENSRNOG00060026674	UniProtKB/Swiss-Prot
	ENSRNOG00065011419	UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000016828	ENTREZGENE
	ENSRNOT00000016828.9	UniProtKB/Swiss-Prot
	ENSRNOT00000060452	ENTREZGENE
	ENSRNOT00000060452.5	UniProtKB/TrEMBL
	ENSRNOT00055002627	UniProtKB/Swiss-Prot
	ENSRNOT00060046212	UniProtKB/Swiss-Prot
	ENSRNOT00065018557	UniProtKB/Swiss-Prot
Gene3D-CATH	1.20.930.80	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7456950	IMAGE-MGC_LOAD
InterPro	DNA_primase_lsu_euk	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	DNA_primase_lsu_euk/arc	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:301323	UniProtKB/TrEMBL
MGC_CLONE	MGC:114515	IMAGE-MGC_LOAD
NCBI Gene	301323	ENTREZGENE
PANTHER	DNA PRIMASE LARGE SUBUNIT	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PTHR10537	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	DNA_primase_lrg	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Prim2	PhenoGen
PIRSF	DNA_primase_large_subunit	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000012486	RatGTEx
	ENSRNOG00055001642	RatGTEx
	ENSRNOG00060026674	RatGTEx
	ENSRNOG00065011419	RatGTEx
Superfamily-SCOP	PriB N-terminal domain-like	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A6IN89	ENTREZGENE, UniProtKB/TrEMBL
	O89044	ENTREZGENE, UniProtKB/Swiss-Prot
	Q4V8C0	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2017-08-22	Prim2	DNA primase subunit 2	Prim2	primase (DNA) subunit 2	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2016-08-29	Prim2	primase (DNA) subunit 2	Prim2	primase, DNA, polypeptide 2	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-12-15	Prim2	primase, DNA, polypeptide 2	Prim2	DNA primase, p58 subunit	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2004-02-11	Prim2	DNA primase, p58 subunit	Pola3	DNA polymerase alpha subunit III (primase)	Symbol and Name updated to reflect Human and Mouse nomenclature	625702	APPROVED

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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Imported Annotations - KEGG (archival)