Pms2 (PMS1 homolog 2, mismatch repair system component)

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Gene: Pms2 (PMS1 homolog 2, mismatch repair system component) Rattus norvegicus

Analyze

Symbol:

Pms2

Name:

PMS1 homolog 2, mismatch repair system component

RGD ID:

1305483

Description:

Predicted to enable ATP hydrolysis activity and single base insertion or deletion binding activity. Predicted to contribute to MutSalpha complex binding activity and single-stranded DNA binding activity. Involved in response to xenobiotic stimulus. Predicted to be located in cytoplasmic ribonucleoprotein granule; cytosol; and nucleoplasm. Predicted to be part of MutLalpha complex. Human ortholog(s) of this gene implicated in Lynch syndrome; hereditary nonpolyposis colorectal cancer type 4; mismatch repair cancer syndrome; ovarian cancer; and urinary bladder cancer. Orthologous to several human genes including PMS2 (PMS1 homolog 2, mismatch repair system component); PARTICIPATES IN altered mismatch repair pathway; colorectal cancer pathway; mismatch repair pathway; INTERACTS WITH 2,6-dinitrotoluene; 4-hydroperoxycyclophosphamide; bisphenol A.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

LOC288479; mismatch repair endonuclease PMS2; PMS2 postmeiotic segregation increased 2; postmeiotic segregation increased 2; postmeiotic segregation increased 2 (S. cerevisiae)

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

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
mRatBN7.2	12	10,676,819 - 10,701,161 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	12	10,676,764 - 10,701,066 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	12	11,483,953 - 11,508,343 (-)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	12	12,107,244 - 12,131,635 (-)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	12	11,131,272 - 11,155,470 (-)	NCBI	Rnor_WKY
Rnor_6.0	12	12,714,394 - 12,738,654 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	12	12,714,394 - 12,738,641 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	12	14,757,747 - 14,781,994 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	12	11,004,507 - 11,028,754 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	12	11,034,447 - 11,058,818 (-)	NCBI
Celera	12	12,474,260 - 12,498,506 (-)	NCBI		Celera
Cytogenetic Map	12	p11	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Angioma Serpiginosum, Autosomal Dominant (ISO)

autosomal recessive nonsyndromic deafness 2 (ISO)

Brain Neoplasms (ISO)

breast cancer (ISO)

Breast Cancer, Familial (ISO)

breast carcinoma (ISO)

Breast Neoplasms (ISO)

Cafe-au-Lait Spots (ISO)

colon cancer (ISO)

colon carcinoma (ISO)

Colonic Neoplasms (ISO)

Colonic Polyps (ISO)

Colorectal Neoplasms (ISO)

endometrial carcinoma (ISO)

hepatocellular carcinoma (ISO)

hereditary breast ovarian cancer syndrome (ISO)

Hereditary Neoplastic Syndromes (ISO)

hereditary nonpolyposis colorectal cancer type 4 (ISO)

Lowry Maclean syndrome (ISO)

Lynch syndrome (ISO)

Lynch syndrome 1 (ISO)

mismatch repair cancer syndrome (ISO)

Mismatch Repair Cancer Syndrome 1 (ISO)

Mismatch Repair Cancer Syndrome 4 (ISO)

Neoplasm Metastasis (ISO)

ovarian cancer (ISO)

Ovarian Neoplasms (ISO)

pituitary carcinoma (ISO)

Primitive Neuroectodermal Tumors (ISO)

prostate cancer (ISO)

Pulmonary Arterial Hypertension (ISO)

rhabdomyosarcoma (ISO)

stomach cancer (ISO)

Supratentorial Neoplasms (ISO)

Tumor Predisposition Syndrome 1 (ISO)

urinary bladder cancer (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dichloroethane (ISO)

17beta-estradiol (ISO)

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

2,6-dinitrotoluene (EXP)

4-hydroperoxycyclophosphamide (EXP)

5-aza-2'-deoxycytidine (ISO)

acrolein (ISO)

alpha-pinene (ISO)

aristolochic acid A (ISO)

arsenous acid (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP)

cadmium dichloride (ISO)

chromium(6+) (ISO)

cisplatin (ISO)

cyclophosphamide (EXP)

cylindrospermopsin (ISO)

diarsenic trioxide (ISO)

dibutyl phthalate (ISO)

ethanol (ISO)

furan (EXP)

gentamycin (EXP)

imiquimod (ISO)

methylseleninic acid (ISO)

myristicin (ISO)

N-methyl-N-nitrosourea (ISO)

nitric oxide (ISO)

O-methyleugenol (EXP)

ozone (ISO)

paracetamol (ISO)

perfluorononanoic acid (ISO)

raloxifene (ISO)

resveratrol (ISO)

sodium arsenite (ISO)

temozolomide (ISO)

tetrachloromethane (ISO)

triptonide (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

DNA damage response (ISO)

DNA repair (ISO)

mismatch repair (IBA,ISO)

positive regulation of isotype switching to IgA isotypes (ISO)

positive regulation of isotype switching to IgG isotypes (ISO)

response to xenobiotic stimulus (IEP)

somatic hypermutation of immunoglobulin genes (IBA,ISO)

somatic recombination of immunoglobulin gene segments (ISO)

Cellular Component

cytosol (ISO)

MutLalpha complex (IBA,ISO)

nucleoplasm (ISO)

nucleus (ISO)

Molecular Function

ATP binding (IEA)

ATP hydrolysis activity (IBA)

ATP-dependent DNA damage sensor activity (IEA)

DNA binding (ISO)

MutSalpha complex binding (ISO)

protein binding (ISO)

single base insertion or deletion binding (ISO)

single-stranded DNA binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

altered mismatch repair pathway (ISO)

colorectal cancer pathway (ISO)

mismatch repair pathway (IEA,ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	The expression of mismatched repair genes and their correlation with clinicopathological parameters and response to neo-adjuvant chemotherapy in breast cancer.	Chintamani, etal., Int Semin Surg Oncol. 2007 Feb 14;4:5.
2.	Evidence for a recessive inheritance of Turcot's syndrome caused by compound heterozygous mutations within the PMS2 gene.	De Rosa M, etal., Oncogene. 2000 Mar 23;19(13):1719-23.
3.	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.
4.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
5.	Genetic Susceptibility to Distinct Bladder Cancer Subphenotypes.	Guey LT, etal., Eur Urol. 2009 Aug 12.
6.	Paternal exposure to cyclophosphamide induces DNA damage and alters the expression of DNA repair genes in the rat preimplantation embryo.	Harrouk W, etal., Mutat Res 2000 Nov 9;461(3):229-41.
7.	Heterozygous mutations in PMS2 cause hereditary nonpolyposis colorectal carcinoma (Lynch syndrome).	Hendriks YM, etal., Gastroenterology. 2006 Feb;130(2):312-22.
8.	DNA mismatch repair defects: role in colorectal carcinogenesis.	Jacob S and Praz F, Biochimie. 2002 Jan;84(1):27-47.
9.	Mechanisms and functions of DNA mismatch repair.	Li GM Cell Res. 2008 Jan;18(1):85-98.
10.	Frameshift mutational target gene analysis identifies similarities and differences in constitutional mismatch repair-deficiency and Lynch syndrome.	Maletzki C, etal., Mol Carcinog. 2017 Jul;56(7):1753-1764. doi: 10.1002/mc.22632. Epub 2017 Mar 30.
11.	Mismatch repair gene polymorphisms and survival in invasive ovarian cancer patients.	Mann A, etal., Eur J Cancer. 2008 Oct;44(15):2259-65. Epub 2008 Aug 22.
12.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
13.	Mutations of two PMS homologues in hereditary nonpolyposis colon cancer.	Nicolaides NC, etal., Nature. 1994 Sep 1;371(6492):75-80.
14.	The elevated expression of a mismatch repair protein is a predictor for biochemical recurrence after radical prostatectomy.	Norris AM, etal., Cancer Epidemiol Biomarkers Prev. 2009 Jan;18(1):57-64.
15.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
16.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
17.	GOA pipeline	RGD automated data pipeline
18.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
19.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
20.	Comprehensive gene review and curation	RGD comprehensive gene curation

Additional References at PubMed

PMID:9500552	PMID:9618520	PMID:10359802	PMID:10429667	PMID:10430621	PMID:10871409	PMID:11313994	PMID:11809883	PMID:11828012	PMID:12477932	PMID:15480418	PMID:16204034
PMID:16403449	PMID:16713580	PMID:16728433	PMID:23071719	PMID:23709753

Genomics

Comparative Map Data

Pms2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	12	10,676,819 - 10,701,161 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	12	10,676,764 - 10,701,066 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	12	11,483,953 - 11,508,343 (-)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	12	12,107,244 - 12,131,635 (-)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	12	11,131,272 - 11,155,470 (-)	NCBI	Rnor_WKY
Rnor_6.0	12	12,714,394 - 12,738,654 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	12	12,714,394 - 12,738,641 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	12	14,757,747 - 14,781,994 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	12	11,004,507 - 11,028,754 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	12	11,034,447 - 11,058,818 (-)	NCBI
Celera	12	12,474,260 - 12,498,506 (-)	NCBI		Celera
Cytogenetic Map	12	p11	NCBI

PMS2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	7	5,970,925 - 6,009,106 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	7	5,970,925 - 6,009,130 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	7	6,010,556 - 6,048,737 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	7	5,979,396 - 6,015,263 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	7	5,786,113 - 5,821,915	NCBI
Celera	7	5,957,552 - 5,958,444 (-)	NCBI		Celera
Celera	7	60,142,236 - 60,149,112 (-)	NCBI		Celera
Cytogenetic Map	7	p22.1	NCBI
HuRef	7	5,894,376 - 5,920,472 (-)	NCBI		HuRef
CHM1_1	7	6,012,471 - 6,048,456 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	7	6,088,690 - 6,126,871 (-)	NCBI		T2T-CHM13v2.0
CRA_TCAGchr7v2	7	6,059,215 - 6,095,082 (-)	NCBI

Pms2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	143,846,379 - 143,922,538 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	5	143,846,782 - 143,870,786 (+)	Ensembl		GRCm39 Ensembl
GRCm39 Ensembl	5	143,869,853 - 143,922,537 (+)	Ensembl		GRCm39 Ensembl
GRCm38	5	143,909,901 - 143,972,745 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	143,909,964 - 143,933,968 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	5	144,670,870 - 144,692,625 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	5	144,163,492 - 144,184,971 (+)	NCBI		MGSCv36	mm8
Celera	5	140,892,468 - 140,914,240 (+)	NCBI		Celera
Cytogenetic Map	5	G2	NCBI
cM Map	5	82.82	NCBI

Pms2
(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	NW_004955460	13,762,854 - 13,791,462 (+)	NCBI	ChiLan1.0	ChiLan1.0

PMS2
(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	7	59,986,772 - 60,025,245 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	7	7,433,031 - 7,459,560 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	7	6,175,913 - 6,203,094 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	7	6,167,403 - 6,202,984 (-)	Ensembl	panpan1.1		panPan2

PMS2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	6	11,411,062 - 11,438,767 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	6	11,349,453 - 11,438,940 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	6	13,036,823 - 13,064,755 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	6	11,411,303 - 11,439,261 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	6	11,411,472 - 11,438,840 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	6	11,287,969 - 11,315,948 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	6	11,267,257 - 11,295,211 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	6	11,493,877 - 11,521,829 (-)	NCBI		UU_Cfam_GSD_1.0

Pms2
(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_024409344	139,477,659 - 139,505,890 (-)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936750	439,396 - 468,747 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

PMS2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	3	5,118,018 - 5,145,628 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	5,118,002 - 5,145,634 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	5,179,132 - 5,206,754 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LOC103246803
(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	28	15,174,359 - 15,209,962 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	28	15,172,100 - 15,209,852 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666102	2,176 - 909,949 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Pms2
(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_004624740	31,315,121 - 31,345,137 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Pms2
104 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	208
Count of miRNA genes:	157
Interacting mature miRNAs:	174
Transcripts:	ENSRNOT00000067021
Prediction methods:	Microtar, 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 (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
2312418	Kidm41	Kidney mass QTL 41	3.7	0.0001	kidney mass (VT:0002707)	single kidney wet weight to body weight ratio (CMO:0000622)	12	1	19611090	Rat
10755457	Coatc14	Coat color QTL 14		0.01759	coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	12	1	22591684	Rat
6893681	Bw109	Body weight QTL 109	2.3	0.004	body mass (VT:0001259)	body weight (CMO:0000012)	12	1	23297788	Rat
1581516	Cm56	Cardiac mass QTL 56	4.2	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	12	1	29333307	Rat
1598855	Bp294	Blood pressure QTL 294	3.5		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	12	1	34851688	Rat
7411660	Foco28	Food consumption QTL 28	10.9	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	1	42110980	Rat
9590086	Insglur6	Insulin/glucose ratio QTL 6	18.97	0.001	blood insulin amount (VT:0001560)	calculated plasma insulin level (CMO:0002170)	12	1	42110980	Rat
8694179	Bw150	Body weight QTL 150	2.9	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	12	1	42110980	Rat
7411586	Foco5	Food consumption QTL 5	5.4	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	1	42110980	Rat
7411595	Foco9	Food consumption QTL 9	4	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	1	42110980	Rat
7411545	Bw128	Body weight QTL 128	5.2	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	12	1	42110980	Rat
9590147	Scort7	Serum corticosterone level QTL 7	13.61	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	12	1	42110980	Rat
2303575	Insul14	Insulin level QTL 14	4		blood insulin amount (VT:0001560)	blood insulin level (CMO:0000349)	12	1	42450532	Rat
737979	Pia22	Pristane induced arthritis QTL 22	53.1		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	1	44465750	Rat
634351	Apr5	Acute phase response QTL 5	6.7		blood interleukin-6 amount (VT:0008595)	plasma interleukin-6 level (CMO:0001927)	12	1	44503507	Rat
2302042	Pia38	Pristane induced arthritis QTL 38	3.5	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G1 level (CMO:0002115)	12	1	44503507	Rat
634350	Apr4	Acute phase response QTL 4	6		orosomucoid 1 amount (VT:0010541)	plasma orosomucoid 1 level (CMO:0001467)	12	1172005	46172005	Rat
8552918	Pigfal7	Plasma insulin-like growth factor 1 level QTL 7			blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	5564495	46669029	Rat
7411547	Bw129	Body weight QTL 129		0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	6	5564495	46669029	Rat
7411597	Foco10	Food consumption QTL 10		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	5564495	46669029	Rat
7411641	Foco19	Food consumption QTL 19	27.7	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	5564495	46669029	Rat
8552964	Pigfal17	Plasma insulin-like growth factor 1 level QTL 17	3.5		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	5564495	46669029	Rat
7411588	Foco6	Food consumption QTL 6		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	5564495	46669029	Rat
8552912	Pigfal6	Plasma insulin-like growth factor 1 level QTL 6	5		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	5564498	46669029	Rat
10059594	Kidm46	Kidney mass QTL 46	3.79	0.025	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	12	6107579	46669029	Rat
1600391	Edcs2	Endometrial carcinoma susceptibility QTL2	3.5	0.01	uterus morphology trait (VT:0001120)	percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)	12	6833190	17870186	Rat
1302792	Scl21	Serum cholesterol level QTL 21	3.8	0.0011	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	12	7196730	46669029	Rat
2293086	Iddm30	Insulin dependent diabetes mellitus QTL 30	3.82		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	12	8449490	28302290	Rat
61331	Eau2	Experimental allergic uveoretinitis QTL 2		0.0005	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	12	8525423	28064601	Rat
1331739	Hrtrt14	Heart rate QTL 14	3.56232		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	12	9318216	12829686	Rat
1300157	Rf21	Renal function QTL 21	4.4		renal blood flow trait (VT:2000006)	absolute change in renal blood flow rate (CMO:0001168)	12	9318216	32103380	Rat
1549829	Scl48	Serum cholesterol level QTL 48	5		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	12	9603277	46669029	Rat
2293699	Bss49	Bone structure and strength QTL 49	5.61	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra trabecular cross-sectional area (CMO:0001692)	12	10474137	46669029	Rat
2300186	Bmd59	Bone mineral density QTL 59	7.1	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	12	10474137	46669029	Rat

Markers in Region

RH141752

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	12	10,676,919 - 10,677,121 (+)	MAPPER	mRatBN7.2
Rnor_6.0	12	12,714,495 - 12,714,696	NCBI	Rnor6.0
Rnor_5.0	12	14,757,848 - 14,758,049	UniSTS	Rnor5.0
RGSC_v3.4	12	11,004,608 - 11,004,809	UniSTS	RGSC3.4
Celera	12	12,474,361 - 12,474,562	UniSTS
RH 3.4 Map	12	124.1	UniSTS
Cytogenetic Map	12	p11	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	26	27	16	18	16	1	1	74	27	38	11	1
Low	1	17	30	25	1	25	7	10		8	3		7
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001105908	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001399795	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006248862	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017598288	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039089178	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039089179	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039089180	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005491606	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005491607	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC126486	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AF381287	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC089909	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC160858	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474012	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000224	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000067021 ⟹ ENSRNOP00000061927

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	12	10,676,764 - 10,701,066 (-)	Ensembl
Rnor_6.0 Ensembl	12	12,714,394 - 12,738,641 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000078603 ⟹ ENSRNOP00000069740

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	12	10,676,835 - 10,701,058 (-)	Ensembl
Rnor_6.0 Ensembl	12	12,714,408 - 12,738,620 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000094513 ⟹ ENSRNOP00000079389

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	12	10,676,833 - 10,701,000 (-)	Ensembl

RefSeq Acc Id:

NM_001105908 ⟹ NP_001099378

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	10,676,819 - 10,701,066 (-)	NCBI
Rnor_6.0	12	12,714,394 - 12,738,641 (-)	NCBI
Rnor_5.0	12	14,757,747 - 14,781,994 (-)	NCBI
RGSC_v3.4	12	11,004,507 - 11,028,754 (-)	RGD
Celera	12	12,474,260 - 12,498,506 (-)	RGD

Sequence:

show sequence

GCAGCCAATGGGTGGCCCAGGAGACGCGTCTCCGTGAGAGCGGCGCGCGAAGTCTCCCGGGGAG
ACTGAGACTGGAGGAGTGCTGCTTCCATGGAACCAACTGAGGGCGCGAGTACAGAATGTGCTAA
GGCCATCAAGCCTATTGATGGGAAGTCAGTCCATCAGATTTGCTCTGGGCAGGTGGTACTCAGT
TTAAGCACTGCTGTGAAGGAGTTGATAGAAAATAGTGTAGATGCCGGTGCTACTAGTATTGATC
TAAGGCTTAAAGACTATGGAGTGGACCTCATTGAAGTTTCAGACAATGGATGTGGGGTAGAAGA
AGAAAACTTTGAAGGTCTAGCTCTGAAACATCACACCTCTAAGATTCGAGAGTTTGCCGACCTC
ACGCAGGTTGAAACTTTCGGCTTTCGGGGGGAAGCTCTGAGCTCTCTGTGTGCACTGAGTGATG
TCACTATATCTACCTGCCATGTGTCTGCAAGCATTGGGACTCGACTGGTGTTGGACCATAATGG
GAAAATCATCCAGAAAACTCCCTGCCCACGGCCTAAAGGAACCACAGTCAGCGTGCAGAACTTA
TTTTACACCCTACCCGTACGTCACAAAGAGTTTCAAAGGAACATTAAAAAGGAGTATGCCAAAA
TGGTCCAGGTCTTACAGGCGTACTGCATCATTTCAGCCGGCATCCGTGTGAGCTGCACTAATCA
GCTCGGACAGGGGAAACGGCAGCCTGTGGTGTGCACGAGCGGAAGCTCCGGCATGAAGGAAAAT
ATCGGGTCTGTGTTCGGCCAGAAGCAGCATTTCAGGCTTCATTTCACAGTGCACGCATGGTGCC
GGGAGGAGTTCAACAGACAGACAGTTTTTCTTCATCAATCAGCGGCCTTGTGACCCAGCGAAGG
TCTCTAGACTGGTGAATGAGGTCTACCACATGTATAATCGGCACCAGTATCCATTTGTCGTTCT
TAACGTGTCCGTGGACTCGGAATGTGTGGATATTAACGTGACCCCAGATAAAAGGCAGATTTTA
CTACAGGAAGAGAAGCTTTTGCTGGCAGTTTTAAAGACGTCCTTGATGGGAATGTTCGACAGTG
ATGCAAACAAGCTTAGTGTCAACCAGCAGCCGCTGCTGAATGTCGAAGGTAACTTAGTAAAGCT
ACATACCGCAGAAGTAGGAGAGCAAGAGAACTCTCCTTCATTGAGGATCACAGCGGAAGAGAAA
AGGGTAGCATCTGTGTCTAGGCTGAGAGAGGCCTATTCTCTTCATCGTACCACAGAGACCAAGT
CTTGGGGCCCAGAGACTCCTGAACTGAAACAGAGTTTTCCAAGTCAGAAAAGGGGTGTATCATC
ATCTTGTCCTTCAGACATCATCTCTTATAGAGGCCTGTGTGGCTCACAGGACAAATTGGTGAGT
CCCACGGATAGCCCTGGTGACTGTATGGACAGAGAAAAAGGAGAAAAGGACTCAGGGCTTAGCA
GCACCTCAGCTGGCTCTGAGGAAGGGTTCAGCACCCCAGAAGTGGCCAGTAGCTTTAGCAGTGA
CTGCAACGTGAGCTCCCCAGAGGACAGACCTTCTCAGGAAAACACAAACTGTGGCGAGCAGTTC
CTTGAAGTGGATGACCACCTTTCAGGTACAGGACACCATTTGAAGCCAGAAGACAATGGATATA
AATGTCGAGCTTCACTTCCACCAACTCGGCTCTCTCCCTCAAATGCTAAGCGTTTCAGGACAGA
GGACAGGCCTTCAAATGTTGGCGTTCCTCAGAACACCTCAGCAGCTGAGGTTGACGTAGCTGTA
AAAATTAATAAGAAAATAGTGCTCCTTGACTTCTCTCTGAGCTCTTTAGCTAAACAAATGAAGC
AGTTACAGCACCTGAAGCAGCAGAGCAAAAGCGAACACAATTACAGGAAATTTAGGGCCAAGAT
TTGCCCTGGAGAAAATCAAGCAGCAGAAGATGAACTCAGAAGAGAGATTAGGAAGTCGATGTTC
GCAGAGATGGAGATCTTGGGTCAGTTTAACCTGGGATTCATCGTAACCAAACTGAAGGAGGACC
TCTTCCTGGTGGACCAGCACGCCGCCGACGAGAAGTACAACTTTGAGATGCTGCAGCAGCACAC
GGTGCTCCAGGCTCAGAGGCTCATCACTCCCCAGACTCTGAACTTAACTGCTGTCAATGAAGCT
GTGCTGATAGAAAATCTGGAAATATTCAGAAAGAATGGCTTTGACTTTATCATTGATGAAGATG
CTCCAGTCACTGAAAGGGCTAAACTGATTTCCTTACCCACTAGTAAAAACTGGACCTTTGGACC
CCAAGATATCGATGAACTGATCTTTATGCTCAGTGACAGCCCTGGGGTCATGTGCCGGCCCTCG
AGAGTCAGACAGATGTTTGCTTCCCGAGCGTGTCGGAAGTCTGTGATGATTGGAACCGCTCTCA
GTGCAAGTGAGATGAAGAAGCTCATCTCCCACATGGGTGAGATGGACCACCCCTGGAACTGCCC
CCACGGAAGGCCGACCATGAGGCACATTGCAAATCTGGATGTCATCTCCCAGAACTGACTGACC
GCTTGTGGGATAGAGCTCATTACAGATTGTTCTGTTTGGAGAGATGGTTTTACGTAATCTGATT
ATCGTTGTTCAAAAACTAGCATGCTACTTTAATGTACTGGATCCATTTAAAAACTGTGTAGCCA
GGCATAATGGCCTGTGCTTCTGGCCTAGCTACTTGGGAGAGCCACCCCAGGAGTTTGAGACTAT
CCTGAGCTACATTGGTGAGACTCTAATTCAAGGACAAAAATATATATATATTTTGAAACCTTTT
CACCATGTCTGC

hide sequence

RefSeq Acc Id:

XM_006248862 ⟹ XP_006248924

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	10,676,829 - 10,701,161 (-)	NCBI
Rnor_6.0	12	12,714,404 - 12,738,654 (-)	NCBI
Rnor_5.0	12	14,757,747 - 14,781,994 (-)	NCBI

Sequence:

show sequence

CTATATGTCAAAAGCAGCCAATGGGTGGCCCAGGAGACGCGTCTCCGTGAGAGCGGCGCGCGAA
GTCTCCCGGGGAGACTGAGACTGGAGGAGTGCTGCTTCCATGGAACCAACTGAGGGCGCGAGTA
CAGAATGTGCTAAGGCCATCAAGCCTATTGATGGGAAGTCAGTCCATCAGATTTGCTCTGGGCA
GGTGGTACTCAGTTTAAGCACTGCTGTGAAGGAGTTGATAGAAAATAGTGTAGATGCCGGTGCT
ACTAGTATTGATCTAAGGCTTAAAGACTATGGAGTGGACCTCATTGAAGTTTCAGACAATGGAT
GTGGGGTAGAAGAAGAAAACTTTGAAGGTCTAGCTCTGAAACATCACACCTCTAAGATTCGAGA
GTTTGCCGACCTCACGCAGGTTGAAACTTTCGGCTTTCGGGGGGAAGCTCTGAGCTCTCTGTGT
GCACTGAGTGATGTCACTATATCTACCTGCCATGTGTCTGCAAGCATTGGGACTCGACTGGTGT
TGGACCATAATGGGAAAATCATCCAGAAAACTCCCTGCCCACGGCCTAAAGGAACCACAGTCAG
CGTGCAGAACTTATTTTACACCCTACCCGTACGTCACAAAGAGTTTCAAAGGAACATTAAAAAG
GAGTATGCCAAAATGGTCCAGGTCTTACAGGCGTACTGCATCATTTCAGCCGGCATCCGTGTGA
GCTGCACTAATCAGCTCGGACAGGGGAAACGGCAGCCTGTGGTGTGCACGAGCGGAAGCTCCGG
CATGAAGGAAAATATCGGGTCTGTGTTCGGCCAGAAGCAGCTGCAGAGCCTCGTTCCTTTTGTG
CAGCTGCCCCCTAGTGACTCCGTCTGTGAAGAGTACTGCCTGAGCGCTTGTGGGACCCCGCAGA
GTCCTTTCCGCATTTCAGGCTTCATTTCACAGTGCACGCATGGTGCCGGGAGGAGTTCAACAGA
CAGACAGTTTTTCTTCATCAATCAGCGGCCTTGTGACCCAGCGAAGGTCTCTAGACTGGTGAAT
GAGGTCTACCACATGTATAATCGGCACCAGTATCCATTTGTCGTTCTTAACGTGTCCGTGGACT
CGGAATGTGTGGATATTAACGTGACCCCAGATAAAAGGCAGATTTTACTACAGGAAGAGAAGCT
TTTGCTGGCAGTTTTAAAGACGTCCTTGATGGGAATGTTCGACAGTGATGCAAACAAGCTTAGT
GTCAACCAGCAGCCGCTGCTGAATGTCGAAGGTAACTTAGTAAAGCTACATACCGCAGAAGTAG
GAGAGCAAGAGAACTCTCCTTCATTGAGGATCACAGCGGAAGAGAAAAGGGTAGCATCTGTGTC
TAGGCTGAGAGAGGCCTATTCTCTTCATCGTACCACAGAGACCAAGTCTTGGGGCCCAGAGACT
CCTGAACTGAAACAGAGTTTTCCAAGTCAGAAAAGGGGTGTATCATCATCTTGTCCTTCAGACA
TCATCTCTTATAGAGGCCTGTGTGGCTCACAGGACAAATTGGTGAGTCCCACGGATAGCCCTGG
TGACTGTATGGACAGAGAAAAAGGAGAAAAGGACTCAGGGCTTAGCAGCACCTCAGCTGGCTCT
GAGGAAGGGTTCAGCACCCCAGAAGTGGCCAGTAGCTTTAGCAGTGACTGCAACGTGAGCTCCC
CAGAGGACAGACCTTCTCAGGAAAACACAAACTGTGGCGAGCAGTTCCTTGAAGTGGATGACCA
CCTTTCAGGTACAGGACACCATTTGAAGCCAGAAGACAATGGATATAAATGTCGAGCTTCACTT
CCACCAACTCGGCTCTCTCCCTCAAATGCTAAGCGTTTCAGGACAGAGGACAGGCCTTCAAATG
TTGGCGTTCCTCAGAACACCTCAGCAGCTGAGGTTGACGTAGCTGTAAAAATTAATAAGAAAAT
AGTGCTCCTTGACTTCTCTCTGAGCTCTTTAGCTAAACAAATGAAGCAGTTACAGCACCTGAAG
CAGCAGAGCAAAAGCGAACACAATTACAGGAAATTTAGGGCCAAGATTTGCCCTGGAGAAAATC
AAGCAGCAGAAGATGAACTCAGAAGAGAGATTAGGAAGTCGATGTTCGCAGAGATGGAGATCTT
GGGTCAGTTTAACCTGGGATTCATCGTAACCAAACTGAAGGAGGACCTCTTCCTGGTGGACCAG
CACGCCGCCGACGAGAAGTACAACTTTGAGATGCTGCAGCAGCACACGGTGCTCCAGGCTCAGA
GGCTCATCACTCCCCAGACTCTGAACTTAACTGCTGTCAATGAAGCTGTGCTGATAGAAAATCT
GGAAATATTCAGAAAGAATGGCTTTGACTTTATCATTGATGAAGATGCTCCAGTCACTGAAAGG
GCTAAACTGATTTCCTTACCCACTAGTAAAAACTGGACCTTTGGACCCCAAGATATCGATGAAC
TGATCTTTATGCTCAGTGACAGCCCTGGGGTCATGTGCCGGCCCTCGAGAGTCAGACAGATGTT
TGCTTCCCGAGCGTGTCGGAAGTCTGTGATGATTGGAACCGCTCTCAGTGCAAGTGAGATGAAG
AAGCTCATCTCCCACATGGGTGAGATGGACCACCCCTGGAACTGCCCCCACGGAAGGCCGACCA
TGAGGCACATTGCAAATCTGGATGTCATCTCCCAGAACTGACTGACCGCTTGTGGGATAGAGCT
CATTACAGATTGTTCTGTTTGGAGAGATGGTTTTACGTAATCTGATTATCGTTGTTCAAAAACT
AGCATGCTACTTTAATGTACTGGATCCATTTAAAAACTGTGTAGCCAGGCATAATGGCCTGTGC
TTCTGGCCTAGCTACTTGGGAGAGCCACCCCAGGAGTTTGAGACTATCCTGAGCTACATTGGTG
AGACTCTAATTCAAGGACAAAAATATATATATATTTTGAAACCTTTTCA

hide sequence

RefSeq Acc Id:

XM_017598288 ⟹ XP_017453777

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	10,676,829 - 10,701,161 (-)	NCBI
Rnor_6.0	12	12,714,404 - 12,738,617 (-)	NCBI

Sequence:

show sequence

CGCGTCTCCGTGAGAGCGGCGCGCGAAGTCTCCCGGGGAGACTGAGACTGGAGGAGTGCTGCTT
CCATGGAACCAACTGAGGGCGCGAGAATGTGCTAAGGCCATCAAGCCTATTGATGGGAAGTCAG
TCCATCAGATTTGCTCTGGGCAGGTGGTACTCAGTTTAAGCACTGCTGTGAAGGAGTTGATAGA
AAATAGTGTAGATGCCGGTGCTACTAGTATTGATCTAAGGCTTAAAGACTATGGAGTGGACCTC
ATTGAAGTTTCAGACAATGGATGTGGGGTAGAAGAAGAAAACTTTGAAGGTCTAGCTCTGAAAC
ATCACACCTCTAAGATTCGAGAGTTTGCCGACCTCACGCAGGTTGAAACTTTCGGCTTTCGGGG
GGAAGCTCTGAGCTCTCTGTGTGCACTGAGTGATGTCACTATATCTACCTGCCATGTGTCTGCA
AGCATTGGGACTCGACTGGTGTTGGACCATAATGGGAAAATCATCCAGAAAACTCCCTGCCCAC
GGCCTAAAGGAACCACAGTCAGCGTGCAGAACTTATTTTACACCCTACCCGTACGTCACAAAGA
GTTTCAAAGGAACATTAAAAAGGAGTATGCCAAAATGGTCCAGGTCTTACAGGCGTACTGCATC
ATTTCAGCCGGCATCCGTGTGAGCTGCACTAATCAGCTCGGACAGGGGAAACGGCAGCCTGTGG
TGTGCACGAGCGGAAGCTCCGGCATGAAGGAAAATATCGGGTCTGTGTTCGGCCAGAAGCAGCT
GCAGAGCCTCGTTCCTTTTGTGCAGCTGCCCCCTAGTGACTCCGTCTGTGAAGAGTACTGCCTG
AGCGCTTGTGGGACCCCGCAGAGTCCTTTCCGCATTTCAGGCTTCATTTCACAGTGCACGCATG
GTGCCGGGAGGAGTTCAACAGACAGACAGTTTTTCTTCATCAATCAGCGGCCTTGTGACCCAGC
GAAGGTCTCTAGACTGGTGAATGAGGTCTACCACATGTATAATCGGCACCAGTATCCATTTGTC
GTTCTTAACGTGTCCGTGGACTCGGAATGTGTGGATATTAACGTGACCCCAGATAAAAGGCAGA
TTTTACTACAGGAAGAGAAGCTTTTGCTGGCAGTTTTAAAGACGTCCTTGATGGGAATGTTCGA
CAGTGATGCAAACAAGCTTAGTGTCAACCAGCAGCCGCTGCTGAATGTCGAAGGTAACTTAGTA
AAGCTACATACCGCAGAAGTAGGAGAGCAAGAGAACTCTCCTTCATTGAGGATCACAGCGGAAG
AGAAAAGGGTAGCATCTGTGTCTAGGCTGAGAGAGGCCTATTCTCTTCATCGTACCACAGAGAC
CAAGTCTTGGGGCCCAGAGACTCCTGAACTGAAACAGAGTTTTCCAAGTCAGAAAAGGGGTGTA
TCATCATCTTGTCCTTCAGACATCATCTCTTATAGAGGCCTGTGTGGCTCACAGGACAAATTGG
TGAGTCCCACGGATAGCCCTGGTGACTGTATGGACAGAGAAAAAGGAGAAAAGGACTCAGGGCT
TAGCAGCACCTCAGCTGGCTCTGAGGAAGGGTTCAGCACCCCAGAAGTGGCCAGTAGCTTTAGC
AGTGACTGCAACGTGAGCTCCCCAGAGGACAGACCTTCTCAGGAAAACACAAACTGTGGCGAGC
AGTTCCTTGAAGTGGATGACCACCTTTCAGGTACAGGACACCATTTGAAGCCAGAAGACAATGG
ATATAAATGTCGAGCTTCACTTCCACCAACTCGGCTCTCTCCCTCAAATGCTAAGCGTTTCAGG
ACAGAGGACAGGCCTTCAAATGTTGGCGTTCCTCAGAACACCTCAGCAGCTGAGGTTGACGTAG
CTGTAAAAATTAATAAGAAAATAGTGCTCCTTGACTTCTCTCTGAGCTCTTTAGCTAAACAAAT
GAAGCAGTTACAGCACCTGAAGCAGCAGAGCAAAAGCGAACACAATTACAGGAAATTTAGGGCC
AAGATTTGCCCTGGAGAAAATCAAGCAGCAGAAGATGAACTCAGAAGAGAGATTAGGAAGTCGA
TGTTCGCAGAGATGGAGATCTTGGGTCAGTTTAACCTGGGATTCATCGTAACCAAACTGAAGGA
GGACCTCTTCCTGGTGGACCAGCACGCCGCCGACGAGAAGTACAACTTTGAGATGCTGCAGCAG
CACACGGTGCTCCAGGCTCAGAGGCTCATCACTCCCCAGACTCTGAACTTAACTGCTGTCAATG
AAGCTGTGCTGATAGAAAATCTGGAAATATTCAGAAAGAATGGCTTTGACTTTATCATTGATGA
AGATGCTCCAGTCACTGAAAGGGCTAAACTGATTTCCTTACCCACTAGTAAAAACTGGACCTTT
GGACCCCAAGATATCGATGAACTGATCTTTATGCTCAGTGACAGCCCTGGGGTCATGTGCCGGC
CCTCGAGAGTCAGACAGATGTTTGCTTCCCGAGCGTGTCGGAAGTCTGTGATGATTGGAACCGC
TCTCAGTGCAAGTGAGATGAAGAAGCTCATCTCCCACATGGGTGAGATGGACCACCCCTGGAAC
TGCCCCCACGGAAGGCCGACCATGAGGCACATTGCAAATCTGGATGTCATCTCCCAGAACTGAC
TGACCGCTTGTGGGATAGAGCTCATTACAGATTGTTCTGTTTGGAGAGATGGTTTTACGTAATC
TGATTATCGTTGTTCAAAAACTAGCATGCTACTTTAATGTACTGGATCCATTTAAAAACTGTGT
AGCCAGGCATAATGGCCTGTGCTTCTGGCCTAGCTACTTGGGAGAGCCACCCCAGGAGTTTGAG
ACTATCCTGAGCTACATTGGTGAGACTCTAATTCAAGGACAAAAATATATATATATTTTGAAAC
CTTTTCA

hide sequence

RefSeq Acc Id:

XM_039089178 ⟹ XP_038945106

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	10,676,829 - 10,701,161 (-)	NCBI

RefSeq Acc Id:

XM_039089179 ⟹ XP_038945107

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	10,682,224 - 10,701,161 (-)	NCBI

RefSeq Acc Id:

XM_039089180 ⟹ XP_038945108

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	10,682,245 - 10,701,161 (-)	NCBI

RefSeq Acc Id:

XR_005491606

RefSeq Status:

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	10,681,556 - 10,701,161 (-)	NCBI

RefSeq Acc Id:

XR_005491607

RefSeq Status:

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	12	10,681,556 - 10,701,161 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001099378	(Get FASTA)	NCBI Sequence Viewer
	NP_001386724	(Get FASTA)	NCBI Sequence Viewer
	XP_006248924	(Get FASTA)	NCBI Sequence Viewer
	XP_017453777	(Get FASTA)	NCBI Sequence Viewer
	XP_038945106	(Get FASTA)	NCBI Sequence Viewer
	XP_038945107	(Get FASTA)	NCBI Sequence Viewer
	XP_038945108	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI60858	(Get FASTA)	NCBI Sequence Viewer
	EDL89648	(Get FASTA)	NCBI Sequence Viewer
	EDL89649	(Get FASTA)	NCBI Sequence Viewer
	EDL89650	(Get FASTA)	NCBI Sequence Viewer
	EDL89651	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001099378 ⟸ NM_001105908

- UniProtKB:

D4A360 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MYNRHQYPFVVLNVSVDSECVDINVTPDKRQILLQEEKLLLAVLKTSLMGMFDSDANKLSVNQQ
PLLNVEGNLVKLHTAEVGEQENSPSLRITAEEKRVASVSRLREAYSLHRTTETKSWGPETPELK
QSFPSQKRGVSSSCPSDIISYRGLCGSQDKLVSPTDSPGDCMDREKGEKDSGLSSTSAGSEEGF
STPEVASSFSSDCNVSSPEDRPSQENTNCGEQFLEVDDHLSGTGHHLKPEDNGYKCRASLPPTR
LSPSNAKRFRTEDRPSNVGVPQNTSAAEVDVAVKINKKIVLLDFSLSSLAKQMKQLQHLKQQSK
SEHNYRKFRAKICPGENQAAEDELRREIRKSMFAEMEILGQFNLGFIVTKLKEDLFLVDQHAAD
EKYNFEMLQQHTVLQAQRLITPQTLNLTAVNEAVLIENLEIFRKNGFDFIIDEDAPVTERAKLI
SLPTSKNWTFGPQDIDELIFMLSDSPGVMCRPSRVRQMFASRACRKSVMIGTALSASEMKKLIS
HMGEMDHPWNCPHGRPTMRHIANLDVISQN

hide sequence

RefSeq Acc Id:	XP_006248924 ⟸ XM_006248862
- Peptide Label:	isoform X1
- UniProtKB:	B1H246 (UniProtKB/TrEMBL)
- Sequence:	show sequence MEPTEGASTECAKAIKPIDGKSVHQICSGQVVLSLSTAVKELIENSVDAGATSIDLRLKDYGVD LIEVSDNGCGVEEENFEGLALKHHTSKIREFADLTQVETFGFRGEALSSLCALSDVTISTCHVS ASIGTRLVLDHNGKIIQKTPCPRPKGTTVSVQNLFYTLPVRHKEFQRNIKKEYAKMVQVLQAYC IISAGIRVSCTNQLGQGKRQPVVCTSGSSGMKENIGSVFGQKQLQSLVPFVQLPPSDSVCEEYC LSACGTPQSPFRISGFISQCTHGAGRSSTDRQFFFINQRPCDPAKVSRLVNEVYHMYNRHQYPF VVLNVSVDSECVDINVTPDKRQILLQEEKLLLAVLKTSLMGMFDSDANKLSVNQQPLLNVEGNL VKLHTAEVGEQENSPSLRITAEEKRVASVSRLREAYSLHRTTETKSWGPETPELKQSFPSQKRG VSSSCPSDIISYRGLCGSQDKLVSPTDSPGDCMDREKGEKDSGLSSTSAGSEEGFSTPEVASSF SSDCNVSSPEDRPSQENTNCGEQFLEVDDHLSGTGHHLKPEDNGYKCRASLPPTRLSPSNAKRF RTEDRPSNVGVPQNTSAAEVDVAVKINKKIVLLDFSLSSLAKQMKQLQHLKQQSKSEHNYRKFR AKICPGENQAAEDELRREIRKSMFAEMEILGQFNLGFIVTKLKEDLFLVDQHAADEKYNFEMLQ QHTVLQAQRLITPQTLNLTAVNEAVLIENLEIFRKNGFDFIIDEDAPVTERAKLISLPTSKNWT FGPQDIDELIFMLSDSPGVMCRPSRVRQMFASRACRKSVMIGTALSASEMKKLISHMGEMDHPW NCPHGRPTMRHIANLDVISQN hide sequence

RefSeq Acc Id:

XP_017453777 ⟸ XM_017598288

- Peptide Label:

isoform X2

- Sequence:

show sequence

MVQVLQAYCIISAGIRVSCTNQLGQGKRQPVVCTSGSSGMKENIGSVFGQKQLQSLVPFVQLPP
SDSVCEEYCLSACGTPQSPFRISGFISQCTHGAGRSSTDRQFFFINQRPCDPAKVSRLVNEVYH
MYNRHQYPFVVLNVSVDSECVDINVTPDKRQILLQEEKLLLAVLKTSLMGMFDSDANKLSVNQQ
PLLNVEGNLVKLHTAEVGEQENSPSLRITAEEKRVASVSRLREAYSLHRTTETKSWGPETPELK
QSFPSQKRGVSSSCPSDIISYRGLCGSQDKLVSPTDSPGDCMDREKGEKDSGLSSTSAGSEEGF
STPEVASSFSSDCNVSSPEDRPSQENTNCGEQFLEVDDHLSGTGHHLKPEDNGYKCRASLPPTR
LSPSNAKRFRTEDRPSNVGVPQNTSAAEVDVAVKINKKIVLLDFSLSSLAKQMKQLQHLKQQSK
SEHNYRKFRAKICPGENQAAEDELRREIRKSMFAEMEILGQFNLGFIVTKLKEDLFLVDQHAAD
EKYNFEMLQQHTVLQAQRLITPQTLNLTAVNEAVLIENLEIFRKNGFDFIIDEDAPVTERAKLI
SLPTSKNWTFGPQDIDELIFMLSDSPGVMCRPSRVRQMFASRACRKSVMIGTALSASEMKKLIS
HMGEMDHPWNCPHGRPTMRHIANLDVISQN

hide sequence

RefSeq Acc Id:

ENSRNOP00000061927 ⟸ ENSRNOT00000067021

RefSeq Acc Id:

ENSRNOP00000069740 ⟸ ENSRNOT00000078603

RefSeq Acc Id:	XP_038945106 ⟸ XM_039089178
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038945107 ⟸ XM_039089179
- Peptide Label:	isoform X3

RefSeq Acc Id:	XP_038945108 ⟸ XM_039089180
- Peptide Label:	isoform X4

RefSeq Acc Id:

ENSRNOP00000079389 ⟸ ENSRNOT00000094513

Protein Domains

DNA mismatch repair protein S5 MutL C-terminal dimerisation

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-B1H246-F1-model_v2	AlphaFold	B1H246	1-853	view protein structure

Transcriptome

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

Promoters

RGD ID:

13698434

Promoter ID:

EPDNEW_R8957

Type:

multiple initiation site

Name:

Pms2_1

Description:

PMS1 homolog 2, mismatch repair system component

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	12	12,738,606 - 12,738,666	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1305483	AgrOrtholog
BioCyc Gene	G2FUF-20025	BioCyc
Ensembl Genes	ENSRNOG00000001040	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000061927.2	UniProtKB/TrEMBL
	ENSRNOP00000069740	ENTREZGENE
	ENSRNOP00000069740.2	UniProtKB/TrEMBL
	ENSRNOP00000079389.1	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000067021	ENTREZGENE
	ENSRNOT00000067021.3	UniProtKB/TrEMBL
	ENSRNOT00000078603	ENTREZGENE
	ENSRNOT00000078603.3	UniProtKB/TrEMBL
	ENSRNOT00000094513.1	UniProtKB/TrEMBL
Gene3D-CATH	3.30.1370.100	UniProtKB/TrEMBL
	3.30.1540.20	UniProtKB/TrEMBL
	3.30.230.10	UniProtKB/TrEMBL
	3.30.565.10	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:8365723	IMAGE-MGC_LOAD
InterPro	DNA_mismatch_repair	UniProtKB/TrEMBL
	DNA_mismatch_repair_C	UniProtKB/TrEMBL
	DNA_mismatch_repair_CS	UniProtKB/TrEMBL
	HATPase_C_sf	UniProtKB/TrEMBL
	MutL/Mlh/Pms	UniProtKB/TrEMBL
	MutL_C	UniProtKB/TrEMBL
	MutL_C_dimsub	UniProtKB/TrEMBL
	MutL_C_regsub	UniProtKB/TrEMBL
	MutL_C_sf	UniProtKB/TrEMBL
	Ribosomal_S5_D2-typ_fold	UniProtKB/TrEMBL
	Ribosomal_S5_D2-typ_fold_subgr	UniProtKB/TrEMBL
KEGG Report	rno:288479	UniProtKB/TrEMBL
MGC_CLONE	MGC:187611	IMAGE-MGC_LOAD
NCBI Gene	288479	ENTREZGENE
PANTHER	MISMATCH REPAIR ENDONUCLEASE PMS2	UniProtKB/TrEMBL
	PTHR10073	UniProtKB/TrEMBL
Pfam	DNA_mis_repair	UniProtKB/TrEMBL
	HATPase_c_3	UniProtKB/TrEMBL
	MutL_C	UniProtKB/TrEMBL
PharmGKB	PMS2	RGD
PhenoGen	Pms2	PhenoGen
PROSITE	DNA_MISMATCH_REPAIR_1	UniProtKB/TrEMBL
SMART	DNA_mis_repair	UniProtKB/TrEMBL
	MutL_C	UniProtKB/TrEMBL
Superfamily-SCOP	Ribosomal_S5_D2-typ_fold	UniProtKB/TrEMBL
	SSF118116	UniProtKB/TrEMBL
	SSF55874	UniProtKB/TrEMBL
TIGRFAMs	mutl	UniProtKB/TrEMBL
UniProt	A0A0G2JW47_RAT	UniProtKB/TrEMBL
	A0A8I5ZND0_RAT	UniProtKB/TrEMBL
	B1H246	ENTREZGENE, UniProtKB/TrEMBL
	D4A360	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-04-04	Pms2	PMS1 homolog 2, mismatch repair system component	Pms2	postmeiotic segregation increased 2 (S. cerevisiae)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2013-03-26	Pms2	postmeiotic segregation increased 2 (S. cerevisiae)	Pms2	PMS2 postmeiotic segregation increased 2 (S. cerevisiae)	Name changed	629549	APPROVED
2008-09-09	Pms2	PMS2 postmeiotic segregation increased 2 (S. cerevisiae)	Pms2	postmeiotic segregation increased 2 (S. cerevisiae)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-04-30	Pms2	postmeiotic segregation increased 2 (S. cerevisiae)	Pms2_predicted	postmeiotic segregation increased 2 (S. cerevisiae) (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Pms2_predicted	postmeiotic segregation increased 2 (S. cerevisiae) (predicted)			Symbol and Name status set to approved	70820	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)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - KEGG (archival)

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RGD Manual Annotations

Imported Annotations - KEGG (archival)