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Gene: Hmces (5-hydroxymethylcytosine binding, ES cell specific) Rattus norvegicus

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Symbol:

Hmces

Name:

5-hydroxymethylcytosine binding, ES cell specific

RGD ID:

1559800

Description:

Predicted to enable DNA-(abasic site) binding activity; protein-DNA covalent cross-linking activity; and single-stranded DNA binding activity. Predicted to be involved in DNA repair; positive regulation of isotype switching; and somatic hypermutation of immunoglobulin genes. Predicted to be located in Golgi membrane. Predicted to be part of COPI vesicle coat. Predicted to be active in replication fork. Orthologous to human HMCES (5-hydroxymethylcytosine binding, ES cell specific); INTERACTS WITH 3-chloropropane-1,2-diol; acetamide; bisphenol A.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

5-hydroxymethylcytosine (hmC) binding, ES cell-specific; abasic site processing protein HMCES; embryonic stem cell-specific 5-hydroxymethylcytosine-binding protein; ES cell-specific 5hmC-binding protein; hypothetical protein LOC500251; LOC500251; peptidase HMCES; putative endonuclease HMCES; putative peptidase SRAPD1; SRAP domain-containing protein 1; UPF0361 protein C3orf37 homolog

RGD Orthologs

Alliance Orthologs

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
GRCr8	4	121,950,129 - 121,972,937 (+)	NCBI		GRCr8
mRatBN7.2	4	120,392,812 - 120,415,616 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	120,366,542 - 120,415,616 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	4	125,866,062 - 125,888,161 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	121,640,840 - 121,662,940 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	120,265,087 - 120,287,187 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	119,841,088 - 119,864,115 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	119,815,139 - 119,864,114 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	4	185,088,893 - 185,111,627 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	122,136,275 - 122,154,853 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	4	109,352,960 - 109,375,056 (+)	NCBI		Celera
Cytogenetic Map	4	q34	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

alkaptonuria (ISO)

immunodeficiency 21 (ISO)

Primary Lymphedema with Myelodysplasia (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

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

1,2-dimethylhydrazine (ISO)

3-chloropropane-1,2-diol (EXP)

5-fluorouracil (ISO)

acetamide (EXP)

aristolochic acid A (ISO)

benzo[a]pyrene (ISO)

beta-lapachone (ISO)

bisphenol A (EXP)

bisphenol F (ISO)

bleomycin A2 (ISO)

cadmium dichloride (ISO)

cisplatin (ISO)

copper(II) sulfate (ISO)

coumarin (ISO)

etoposide (ISO)

folic acid (ISO)

lead(0) (ISO)

oxaliplatin (EXP)

panobinostat (ISO)

perfluorooctane-1-sulfonic acid (ISO)

sodium arsenite (ISO)

testosterone (ISO)

tetrachloromethane (ISO)

thioacetamide (EXP)

topotecan (EXP)

tributylstannane (EXP)

triptonide (ISO)

vinclozolin (EXP)

vitamin E (ISO)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

DNA damage response (ISO,ISS)

double-strand break repair via alternative nonhomologous end joining (ISO)

interstrand cross-link repair (ISO,ISS)

intracellular protein transport (IEA)

positive regulation of isotype switching (ISO,ISS)

protein-DNA covalent cross-linking repair (ISO,ISS)

proteolysis (IEA)

somatic hypermutation of immunoglobulin genes (ISO,ISS)

vesicle-mediated transport (IEA)

Cellular Component

COPI vesicle coat (IEA)

endomembrane system (IEA)

Golgi membrane (IEA)

membrane coat (IEA)

replication fork (ISO,ISS)

Molecular Function

DNA-(abasic site) binding (ISO)

DNA-(apurinic or apyrimidinic site) endonuclease activity (ISO,ISS)

peptidase activity (IEA)

protein binding (ISO)

protein-DNA covalent cross-linking activity (ISO,ISS)

single-stranded DNA binding (ISO,ISS)

structural molecule activity (IEA)

References

References - curated

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

Additional References at PubMed

PMID:15489334	PMID:30554877	PMID:31235913	PMID:31806351

Genomics

Comparative Map Data

Hmces
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	4	121,950,129 - 121,972,937 (+)	NCBI		GRCr8
mRatBN7.2	4	120,392,812 - 120,415,616 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	120,366,542 - 120,415,616 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	4	125,866,062 - 125,888,161 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	121,640,840 - 121,662,940 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	120,265,087 - 120,287,187 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	119,841,088 - 119,864,115 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	119,815,139 - 119,864,114 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	4	185,088,893 - 185,111,627 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	122,136,275 - 122,154,853 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	4	109,352,960 - 109,375,056 (+)	NCBI		Celera
Cytogenetic Map	4	q34	NCBI

HMCES
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	3	129,278,832 - 129,306,186 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	3	129,278,828 - 129,306,186 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	3	128,997,675 - 129,025,029 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	3	130,480,374 - 130,506,826 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	3	127,428,466 - 127,455,235 (+)	NCBI		Celera
Cytogenetic Map	3	q21.3	NCBI
HuRef	3	126,382,730 - 126,409,091 (+)	NCBI		HuRef
CHM1_1	3	128,960,920 - 128,987,406 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	3	132,023,631 - 132,050,984 (+)	NCBI		T2T-CHM13v2.0

Hmces
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	6	87,890,889 - 87,913,603 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	6	87,890,917 - 87,913,611 (+)	Ensembl		GRCm39 Ensembl
GRCm38	6	87,913,907 - 87,936,619 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	6	87,913,935 - 87,936,629 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	6	87,863,970 - 87,886,608 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	6	87,879,617 - 87,902,255 (+)	NCBI		MGSCv36	mm8
Celera	6	89,851,062 - 89,873,700 (+)	NCBI		Celera
Cytogenetic Map	6	D1	NCBI
cM Map	6	39.13	NCBI

Hmces
(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_004955429	13,616,647 - 13,661,389 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955429	13,616,647 - 13,638,657 (+)	NCBI	ChiLan1.0	ChiLan1.0

HMCES
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	2	127,214,579 - 127,241,990 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	3	127,219,303 - 127,246,714 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	3	126,339,758 - 126,367,166 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	3	133,694,676 - 133,721,519 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	3	133,694,676 - 133,721,519 (+)	Ensembl	panpan1.1		panPan2

HMCES
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	20	2,808,687 - 2,831,123 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	20	2,808,689 - 2,830,462 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	20	2,845,601 - 2,868,050 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	20	2,829,271 - 2,851,755 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	20	2,822,650 - 2,851,729 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	20	2,549,176 - 2,571,634 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	20	2,875,509 - 2,894,638 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	20	2,836,575 - 2,859,069 (-)	NCBI		UU_Cfam_GSD_1.0

Hmces
(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_024404942	20,219,474 - 20,231,141 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936798	261,661 - 273,011 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936798	261,566 - 284,480 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

HMCES
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	71,732,277 - 71,753,486 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	71,732,311 - 71,752,296 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	79,390,572 - 79,408,184 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

HMCES
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	22	51,759,776 - 51,785,902 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	22	51,759,715 - 51,785,987 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666041	114,614,325 - 114,643,816 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Hmces
(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_004624872	344,262 - 352,936 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624872	344,249 - 353,577 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Hmces
80 total Variants

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
1582232	Gluco25	Glucose level QTL 25	3.6	0.0023	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	85253748	148090731	Rat
631689	Scl4	Serum cholesterol level QTL 4	1.9	0.008	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	4	95174120	140174120	Rat
1358352	Srcrt3	Stress Responsive Cort QTL 3	2.29		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	4	38465774	146803430	Rat
1578655	Bmd11	Bone mineral density QTL 11	11		femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	4	90850165	135850165	Rat
1300116	Hrtrt5	Heart rate QTL 5	3.76		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	4	116179486	151161268	Rat
10755501	Bp390	Blood pressure QTL 390	2.5		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	4	26775591	168368347	Rat
61330	Eau1	Experimental allergic uveoretinitis QTL 1		0.0003	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	4	70362013	132642728	Rat
731165	Uae21	Urinary albumin excretion QTL 21	2.4	0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	4	106649412	151649412	Rat
737821	Hcar9	Hepatocarcinoma resistance QTL 9	3.7		liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	4	109866907	167139601	Rat
1549832	Bss3	Bone structure and strength QTL 3	11		femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	4	109827074	154827074	Rat
70177	Xhs1	X-ray hypersensitivity QTL 1	25.1		intestine integrity trait (VT:0010554)	post-insult time to onset of moribundity (CMO:0001896)	4	82798864	152731274	Rat
61476	Aia3	Adjuvant induced arthritis QTL 3	3.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	86730991	131730991	Rat
1641919	Alc22	Alcohol consumption QTL 22		0.0005	drinking behavior trait (VT:0001422)	ethanol drink intake rate (CMO:0001407)	4	81192555	126192555	Rat
1354660	Salc1	Saline consumption QTL 1	11.26		drinking behavior trait (VT:0001422)	saline drink intake rate (CMO:0001627)	4	44463908	148090542	Rat
1298082	Stresp4	Stress response QTL 4			blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	4	50119848	146803430	Rat
1578670	Bss14	Bone structure and strength QTL 14	16.4		femur morphology trait (VT:0000559)	bone trabecular cross-sectional area (CMO:0002311)	4	87327165	132327165	Rat
70201	Gcr1	Gastric cancer resistance QTL 1	2.7		stomach morphology trait (VT:0000470)	stomach tumor susceptibility score (CMO:0002043)	4	120260281	147278687	Rat
70200	Alc18	Alcohol consumption QTL 18	9.2		drinking behavior trait (VT:0001422)	ethanol intake volume to total fluid intake volume ratio (CMO:0001591)	4	56647873	149491524	Rat
1331759	Hrtrt13	Heart rate QTL 13	3.54628		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	4	110275411	168266883	Rat
724535	Cm18	Cardiac mass QTL 18	2.6		heart mass (VT:0007028)	calculated heart weight (CMO:0000073)	4	118856416	163856416	Rat
2316958	Gluco58	Glucose level QTL 58	10		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	11320076	180699135	Rat
1578662	Bss15	Bone structure and strength QTL 15	19.6		femur width (VT:1000666)	femoral neck width (CMO:0001695)	4	87327165	132327165	Rat
2302049	Pia32	Pristane induced arthritis QTL 32	5.1	0.001	blood autoantibody amount (VT:0003725)	serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)	4	105789505	150789505	Rat
6478763	Anxrr46	Anxiety related response QTL 46		0.07428	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	4	110870972	155870972	Rat
6478760	Anxrr45	Anxiety related response QTL 45		0.06717	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	4	110870972	155870972	Rat
1331802	Srn5	Serum renin concentration QTL 5	3.045		renin activity (VT:0005581)	plasma renin activity level (CMO:0000116)	4	119428175	157578333	Rat
738009	Sach4	Saccharine consumption QTL 4	4.9	0.000016	consumption behavior trait (VT:0002069)	saccharin intake volume to total fluid intake volume ratio (CMO:0001601)	4	59948935	154902892	Rat
2312567	Glom19	Glomerulus QTL 19	1.9	0.006	kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	4	45456990	146803430	Rat
738015	Pia9	Pristane induced arthritis QTL 9	4.5	0.048	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	80694870	125694870	Rat
7207480	Bss105	Bone structure and strength QTL 105	8.1		femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	4	109827074	154827074	Rat
634335	Anxrr16	Anxiety related response QTL 16	7.22		locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	4	93308457	167139447	Rat
631646	Stl4	Serum triglyceride level QTL 4	6.5	0.0001	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	4	73169846	132642728	Rat
634334	Xhs3	X-ray hypersensitivity QTL 3	10		intestine integrity trait (VT:0010554)	post-insult time to onset of moribundity (CMO:0001896)	4	84728680	129854654	Rat
61406	Scwia1	Streptococcal cell wall induced arthritis QTL 1	2.3		joint integrity trait (VT:0010548)	experimental arthritis severity measurement (CMO:0001459)	4	106805662	151805662	Rat
1354612	Foco1	Food consumption QTL 1	8.87		eating behavior trait (VT:0001431)	food intake rate (CMO:0000427)	4	44463908	148090542	Rat
2303168	Bp330	Blood pressure QTL 330	4.25	0.017	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	4	5214602	146446691	Rat
738031	Alc14	Alcohol consumption QTL 14	7.6	0.00003	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	4	59948935	154902892	Rat
1576316	Ept5	Estrogen-induced pituitary tumorigenesis QTL 5	3.8		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	4	83428419	177635233	Rat
631662	Hcar2	Hepatocarcinoma resistance QTL 2	3.1	0.0003	liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	4	78878504	123878504	Rat
1576305	Emca6	Estrogen-induced mammary cancer QTL 6	5.8		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	4	44463720	155883716	Rat
61418	Pia5	Pristane induced arthritis QTL 5	4.5		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	62277855	128289560	Rat
738016	Alc16	Alcohol consumption QTL 16	3.6	0.00015	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	4	59948935	154902892	Rat
1358202	Gluco11	Glucose level QTL 11	2.4	0.02	adipocyte glucose uptake trait (VT:0004185)	absolute change in adipocyte glucose uptake (CMO:0000873)	4	85379421	167139601	Rat
1641833	Alc21	Alcohol consumption QTL 21	8.6	0.0001	drinking behavior trait (VT:0001422)	ethanol drink intake rate (CMO:0001407)	4	56698790	126192555	Rat
631674	Iddm14	Insulin dependent diabetes mellitus QTL 14			blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	4	64528739	157573521	Rat
12798519	Anxrr54	Anxiety related response QTL 54	2.54	0.05	locomotor behavior trait (VT:0001392)	distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)	4	114627026	159627026	Rat
12798523	Anxrr56	Anxiety related response QTL 56	2.83	0.05	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	4	85253748	150276390	Rat
61434	Cia3	Collagen induced arthritis QTL 3	4.8		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	103194656	148194656	Rat
12798527	Anxrr58	Anxiety related response QTL 58	4.11	0.05	locomotor behavior trait (VT:0001392)	distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)	4	119463257	147278687	Rat

Markers in Region

AW546958

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	4	120,415,138 - 120,415,224 (+)	MAPPER	mRatBN7.2
Rnor_6.0	4	119,863,638 - 119,863,723	NCBI	Rnor6.0
Rnor_5.0	4	185,111,150 - 185,111,235	UniSTS	Rnor5.0
RGSC_v3.4	4	122,154,376 - 122,154,461	UniSTS	RGSC3.4
Celera	4	109,374,579 - 109,374,664	UniSTS
Cytogenetic Map	4	q34	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	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	nervous system	renal system	reproductive system	respiratory system
6	6	31	34	30	18	6	18	6	58	24	19	10	19	12

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001025047	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006236851	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039108165	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063286537	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC111943	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC083690	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473957	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ213680	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ234909	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000004	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

NM_001025047 ⟹ NP_001020218

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	121,950,840 - 121,972,937 (+)	NCBI
mRatBN7.2	4	120,393,519 - 120,415,616 (+)	NCBI
Rnor_6.0	4	119,842,018 - 119,864,115 (+)	NCBI
Rnor_5.0	4	185,088,893 - 185,111,627 (+)	NCBI
RGSC_v3.4	4	122,136,275 - 122,154,853 (+)	RGD
Celera	4	109,352,960 - 109,375,056 (+)	RGD

Sequence:

show sequence

CTGGTGGTCTGAGAGGCATTGCTGAAGTATGTGCGGGCGAACGTCCTGTCACTTGCCTAGAGAT
GCTCTCACTAGAGCCTGTGCCTATCTGGATCGGCAGGGCAGGCGTCAGCTCCCGCAGTGGAGGG
ACCCTGATAAGTACTGCCCCTCCTACAACAAGAGCCCGCAGTCTAGCAGCCCAGTGCTTCTCTC
CAGACTGCACTTTGAAAAGGATGCAGATTCATCAGATCGGATAATTTTTCCCATGCGATGGGGC
TTAGTCCCATCTTGGTTCAAAGAAAGTGATCCTTCCAAGCTGCAGTTCAACACTTCCAACTGCC
GTAGTGATACCATAATGGAGAAGCAGTCGTTCAAGGCTCCTCTGGGGAAAGGACGGCGGTGTGT
TGTCTTAGCAGATGGATTCTACGAGTGGCAGCGATGTCAGGGAACAAACCAGAGGCAGCCGTAC
TTCATCTATTTTCCTCAAAGCAAAACAGAGAAGTCAGGTGAGAACAGTGGTTCAGACAGCCTTA
ACAACAAGGAAGAGGTCTGGGACAACTGGAGGCTGCTGACAATGGCAGGGATCTTTGACTGTTG
GGAACCCCCAAAGGGAGAGCGCCTGTATTCCTACAGCATCATCACTGTGGATTCCTGCAGAGGT
CTGAGTGACATCCACAGCAGGATGCCTGCCATACTGGATGGAGAAGAGGCGGTCTCCAAATGGC
TTGACTTTGGTGAGGTCTCTACTCAGGAAGCTCTGAAGCTAATCCACCCCATAGATAACATCAC
CTTCCATCCAGTTTCTCCAGTGGTGAACAATTCCCGAAACAACACTCCTGAGTGTCTGGCTCCT
GCTGACTTGCTGGTTAAGAAGGAGCCCAAGGCAAGTGGCAGTAGTCAAAGGATGATGCAATGGC
TGGCTACAAAGTCACCCAAAAAGGAAGTCCCTGACTCACCCAAAAAGGATGCATCAGGTCTACC
CCAGTGGTCCAGCCAGTTTCTACAGAAGAGCCCATTGCCGACTAAAAGAGGTGCCAGCAGCAGC
CTCCTGGATCGATGGCTGAAGCAGGAGAAGGAGGATGAGCCTGTGGCCAAGAGGCCAAACAGCT
AGTGACAGAGTCCTCCATACCAGGCCTCAGCCTGATACAGTATTACTGATGCCACCAGCTGCCC
GGAATTGTATCCATTTACTTGGGAAGGTGGTGATTCTGTCAGCTGACCTTTATGGACCTAGAAG
AACAAGTCTACTGTGAGACAGCCTAAGAGGGCTAGCTACCATGGCTCCCTATGGGCCCTGCTAT
CCCTGGCTCCTTGCTAGAAGCTTTCCTGTCCCTCCTGTTCCACAAAGGAGGCTCTTCAAAATCT
CTGGGCTCTCCTTTAGAGTTAAGCTTTTTAAATGTATTTGTTCTAAATAAATTGCTTTTGATAA
ACCTTGGCTGGCAAGAGTTCTGGCTCTTGCCCAGTCCTCCCTGAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_006236851 ⟹ XP_006236913

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	121,950,129 - 121,972,937 (+)	NCBI
mRatBN7.2	4	120,392,812 - 120,415,616 (+)	NCBI
Rnor_6.0	4	119,841,088 - 119,864,115 (+)	NCBI
Rnor_5.0	4	185,088,893 - 185,111,627 (+)	NCBI

Sequence:

show sequence

AAACAAGGTGGGGCTTCCTGACCCTTAGAGGGTTCTTGGTGGATAGCTAGAAAGTCTCAATTCT
GGTGGCCTTACACATTTCCTGGTTTCAGAGACTGGCCTGAGGAGGAGGCCTGGAGTGCTTGTCT
CAGGTGAGTGTATTTTGTCTTGCTTTAAGGTGGTGAATCAACGGAACTTGGTTTCCAGCTTGCT
CCTCACCTAGCCACACCCCCACCTGTGGGGAGGAAACCCCATGGCGTCACGTCACGTCGGGGGC
GGGGCGGGATTACCGAAGGGCGGGGCTAGTGCTCTTTAGGTCGACGCTTGAGCGCGGAGAGTGG
ACTGGACTATCTGGTGGTCTGAGAGGCATTGCTGAAGTATGTGCGGGCGAACGTCCTGTCACTT
GCCTAGAGATGCTCTCACTAGAGCCTGTGCCTATCTGGATCGGCAGGGCAGGCGTCAGCTCCCG
CAGTGGAGGGACCCTGATAAGTACTGCCCCTCCTACAACAAGAGCCCGCAGTCTAGCAGCCCAG
TGCTTCTCTCCAGACTGCACTTTGAAAAGGATGCAGATTCATCAGATCGGATAATTTTTCCCAT
GCGATGGGGCTTAGTCCCATCTTGGTTCAAAGAAAGTGATCCTTCCAAGCTGCAGTTCAACACT
TCCAACTGCCGTAGTGATACCATAATGGAGAAGCAGTCGTTCAAGGCTCCTCTGGGGAAAGGAC
GGCGGTGTGTTGTCTTAGCAGATGGATTCTACGAGTGGCAGCGATGTCAGGGAACAAACCAGAG
GCAGCCGTACTTCATCTATTTTCCTCAAAGCAAAACAGAGAAGTCAGGTGAGAACAGTGGTTCA
GACAGCCTTAACAACAAGGAAGAGGTCTGGGACAACTGGAGGCTGCTGACAATGGCAGGGATCT
TTGACTGTTGGGAACCCCCAAAGGGAGAGCGCCTGTATTCCTACAGCATCATCACTGTGGATTC
CTGCAGAGGTCTGAGTGACATCCACAGCAGGATGCCTGCCATACTGGATGGAGAAGAGGCGGTC
TCCAAATGGCTTGACTTTGGTGAGGTCTCTACTCAGGAAGCTCTGAAGCTAATCCACCCCATAG
ATAACATCACCTTCCATCCAGTTTCTCCAGTGGTGAACAATTCCCGAAACAACACTCCTGAGTG
TCTGGCTCCTGCTGACTTGCTGGTTAAGAAGGAGCCCAAGGCAAGTGGCAGTAGTCAAAGGATG
ATGCAATGGCTGGCTACAAAGTCACCCAAAAAGGAAGTCCCTGACTCACCCAAAAAGGATGCAT
CAGGTCTACCCCAGTGGTCCAGCCAGTTTCTACAGAAGAGCCCATTGCCGACTAAAAGAGGTGC
CAGCAGCAGCCTCCTGGATCGATGGCTGAAGCAGGAGAAGGAGGATGAGCCTGTGGCCAAGAGG
CCAAACAGCTAGTGACAGAGTCCTCCATACCAGGCCTCAGCCTGATACAGTATTACTGATGCCA
CCAGCTGCCCGGAATTGTATCCATTTACTTGGGAAGGTGGTGATTCTGTCAGCTGACCTTTATG
GACCTAGAAGAACAAGTCTACTGTGAGACAGCCTAAGAGGGCTAGCTACCATGGCTCCCTATGG
GCCCTGCTATCCCTGGCTCCTTGCTAGAAGCTTTCCTGTCCCTCCTGTTCCACAAAGGAGGCTC
TTCAAAATCTCTGGGCTCTCCTTTAGAGTTAAGCTTTTTAAATGTATTTGTTCTAAATAAATTG
CTTTTGATAAACCTTGGCTGGCAAGAGTTCTGGCTCTTGCCCAGTCCTCCCTGA

hide sequence

RefSeq Acc Id:

XM_039108165 ⟹ XP_038964093

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	121,950,133 - 121,972,937 (+)	NCBI
mRatBN7.2	4	120,392,812 - 120,415,152 (+)	NCBI

RefSeq Acc Id:

XM_063286537 ⟹ XP_063142607

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	121,950,263 - 121,972,937 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001020218	(Get FASTA)	NCBI Sequence Viewer
	XP_006236913	(Get FASTA)	NCBI Sequence Viewer
	XP_038964093	(Get FASTA)	NCBI Sequence Viewer
	XP_063142607	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH83690	(Get FASTA)	NCBI Sequence Viewer
	EDL91299	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000016137.6
	ENSRNOP00000054105.3
	ENSRNOP00000071817.2
	ENSRNOP00000079638.1
	ENSRNOP00000090408.1
	ENSRNOP00055017726
	ENSRNOP00060035000
	ENSRNOP00065019656
GenBank Protein	Q5XIJ1	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_001020218 ⟸ NM_001025047

- UniProtKB:

Q5XIJ1 (UniProtKB/Swiss-Prot), A6IB31 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MCGRTSCHLPRDALTRACAYLDRQGRRQLPQWRDPDKYCPSYNKSPQSSSPVLLSRLHFEKDAD
SSDRIIFPMRWGLVPSWFKESDPSKLQFNTSNCRSDTIMEKQSFKAPLGKGRRCVVLADGFYEW
QRCQGTNQRQPYFIYFPQSKTEKSGENSGSDSLNNKEEVWDNWRLLTMAGIFDCWEPPKGERLY
SYSIITVDSCRGLSDIHSRMPAILDGEEAVSKWLDFGEVSTQEALKLIHPIDNITFHPVSPVVN
NSRNNTPECLAPADLLVKKEPKASGSSQRMMQWLATKSPKKEVPDSPKKDASGLPQWSSQFLQK
SPLPTKRGASSSLLDRWLKQEKEDEPVAKRPNS

hide sequence

RefSeq Acc Id:	XP_006236913 ⟸ XM_006236851
- Peptide Label:	isoform X1
- UniProtKB:	Q5XIJ1 (UniProtKB/Swiss-Prot), A6IB31 (UniProtKB/TrEMBL)
- Sequence:	show sequence MCGRTSCHLPRDALTRACAYLDRQGRRQLPQWRDPDKYCPSYNKSPQSSSPVLLSRLHFEKDAD SSDRIIFPMRWGLVPSWFKESDPSKLQFNTSNCRSDTIMEKQSFKAPLGKGRRCVVLADGFYEW QRCQGTNQRQPYFIYFPQSKTEKSGENSGSDSLNNKEEVWDNWRLLTMAGIFDCWEPPKGERLY SYSIITVDSCRGLSDIHSRMPAILDGEEAVSKWLDFGEVSTQEALKLIHPIDNITFHPVSPVVN NSRNNTPECLAPADLLVKKEPKASGSSQRMMQWLATKSPKKEVPDSPKKDASGLPQWSSQFLQK SPLPTKRGASSSLLDRWLKQEKEDEPVAKRPNS hide sequence

RefSeq Acc Id:	XP_038964093 ⟸ XM_039108165
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_063142607 ⟸ XM_063286537
- Peptide Label:	isoform X2

Protein Domains

Clathrin/coatomer adaptor adaptin-like N-terminal Coatomer gamma subunit appendage Ig-like subdomain Coatomer subunit gamma C-terminal

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q5XIJ1-F1-model_v2	AlphaFold	Q5XIJ1	1-353	view protein structure

Transcriptome

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1559800	AgrOrtholog
BioCyc Gene	G2FUF-43844	BioCyc
Ensembl Genes	ENSRNOG00000010474	Ensembl, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ENSRNOG00055012800	UniProtKB/Swiss-Prot
	ENSRNOG00060024371	UniProtKB/Swiss-Prot
	ENSRNOG00065015164	UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000016137.7	UniProtKB/TrEMBL
	ENSRNOT00000057286.4	UniProtKB/Swiss-Prot
	ENSRNOT00000083402.2	UniProtKB/TrEMBL
	ENSRNOT00000101593.1	UniProtKB/TrEMBL
	ENSRNOT00000108333.1	UniProtKB/TrEMBL
	ENSRNOT00055021883	UniProtKB/Swiss-Prot
	ENSRNOT00060042206	UniProtKB/Swiss-Prot
	ENSRNOT00065025115	UniProtKB/Swiss-Prot
Gene3D-CATH	1.25.10.10	UniProtKB/TrEMBL
	2.60.40.1480	UniProtKB/TrEMBL
	3.30.310.10	UniProtKB/TrEMBL
	3.90.1680.10	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7189409	IMAGE-MGC_LOAD
InterPro	ARM-like	UniProtKB/TrEMBL
	ARM-type_fold	UniProtKB/TrEMBL
	Clathrin/coatomer_adapt-like_N	UniProtKB/TrEMBL
	Coatomer/calthrin_app_sub_C	UniProtKB/TrEMBL
	Coatomer/clathrin_app_Ig-like	UniProtKB/TrEMBL
	Coatomer_g_Cpla	UniProtKB/TrEMBL
	Coatomer_gsu	UniProtKB/TrEMBL
	Coatomer_gsu_app_Ig-like-sub	UniProtKB/TrEMBL
	Coatomer_gsu_app_sf	UniProtKB/TrEMBL
	SRAP	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SRAP-like	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	TBP_dom_sf	UniProtKB/TrEMBL
KEGG Report	rno:500251	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE	MGC:94556	IMAGE-MGC_LOAD
NCBI Gene	500251	ENTREZGENE
PANTHER	ABASIC SITE PROCESSING PROTEIN HMCES	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	COATOMER SUBUNIT GAMMA-1	UniProtKB/TrEMBL
	DC12-RELATED	UniProtKB/TrEMBL
	PTHR10261	UniProtKB/TrEMBL
	PTHR13604	UniProtKB/Swiss-Prot
Pfam	Adaptin_N	UniProtKB/TrEMBL
	Coatomer_g_Cpla	UniProtKB/TrEMBL
	COP-gamma_platf	UniProtKB/TrEMBL
	SRAP	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Hmces	PhenoGen
PIRSF	Coatomer_gamma_subunit	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000010474	RatGTEx
	ENSRNOG00055012800	RatGTEx
	ENSRNOG00060024371	RatGTEx
	ENSRNOG00065015164	RatGTEx
Superfamily-SCOP	BB1717-like	UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
	SSF48371	UniProtKB/TrEMBL
	SSF49348	UniProtKB/TrEMBL
	SSF55711	UniProtKB/TrEMBL
UniProt	A0A0G2K1F3_RAT	UniProtKB/TrEMBL
	A0A8I6A9G6_RAT	UniProtKB/TrEMBL
	A0A8I6G3J7_RAT	UniProtKB/TrEMBL
	A0A8L2Q7S5_RAT	UniProtKB/TrEMBL
	A6IB31	ENTREZGENE, UniProtKB/TrEMBL
	HMCES_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2018-04-24	Hmces	5-hydroxymethylcytosine binding, ES cell specific	Hmces	5-hydroxymethylcytosine (hmC) binding, ES cell-specific	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2013-10-17	Hmces	5-hydroxymethylcytosine (hmC) binding, ES cell-specific	LOC500251	hypothetical protein LOC500251	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-02-09	LOC500251	hypothetical protein LOC500251			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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