Mbd5 (methyl-CpG binding domain protein 5)

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Gene: Mbd5 (methyl-CpG binding domain protein 5) Rattus norvegicus

Analyze

Symbol:

Mbd5

Name:

methyl-CpG binding domain protein 5

RGD ID:

1562961

Description:

Predicted to enable chromatin binding activity. Predicted to be involved in nervous system development and regulation of behavior. Predicted to act upstream of or within glucose homeostasis; positive regulation of growth hormone receptor signaling pathway; and regulation of growth. Predicted to be located in chromocenter; midbody; and nucleoplasm. Human ortholog(s) of this gene implicated in autism spectrum disorder and autosomal dominant intellectual developmental disorder 1. Orthologous to human MBD5 (methyl-CpG binding domain protein 5); INTERACTS WITH (+)-schisandrin B; bisphenol A; cadmium dichloride.

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

LOC311026; methyl-CpG-binding domain protein 5; similar to mKIAA1461 protein

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):	MBD5 (methyl-CpG binding domain protein 5)	HGNC	EggNOG, Ensembl, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Mbd5 (methyl-CpG binding domain protein 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Mbd5 (methyl-CpG binding domain protein 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	MBD5 (methyl-CpG binding domain protein 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	MBD5 (methyl-CpG binding domain protein 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Mbd5 (methyl-CpG binding domain protein 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	MBD5 (methyl-CpG binding domain protein 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	MBD5 (methyl-CpG binding domain protein 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Mbd5 (methyl-CpG binding domain protein 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	MBD5 (methyl-CpG binding domain protein 5)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Mbd5 (methyl-CpG binding domain protein 5)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	mbd5 (methyl-CpG binding domain protein 5)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	sba	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER)
Xenopus tropicalis (tropical clawed frog):	mbd6	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):	mbd5	Alliance	DIOPT (OrthoFinder\|OrthoInspector\|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
mRatBN7.2	3	33,588,854 - 33,738,730 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	3	33,333,554 - 33,730,156 (+)	Ensembl		mRatBN7.2 Ensembl
Rnor_6.0	3	33,364,812 - 33,504,144 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	3	33,440,191 - 33,504,238 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	3	38,600,038 - 38,663,451 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	3	31,856,644 - 31,921,520 (+)	NCBI		Celera
Cytogenetic Map	3	q12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

atrial fibrillation (ISO)

autism spectrum disorder (ISO)

autistic disorder (ISO)

autosomal dominant intellectual developmental disorder (ISS)

autosomal dominant intellectual developmental disorder 1 (ISO)

developmental and epileptic encephalopathy 27 (ISO)

epilepsy (ISO)

epilepsy with generalized tonic-clonic seizures (ISO)

Episodic Ataxia Type 9 (ISO)

genetic disease (ISO)

intellectual disability (ISO)

microcephaly (ISO)

Muscle Hypotonia (ISO)

Neurodevelopmental Disorders (ISO)

schizophrenia (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

(-)-demecolcine (ISO)

(-)-epigallocatechin 3-gallate (ISO)

1,2-dichloroethane (ISO)

17beta-estradiol (ISO)

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

5-aza-2'-deoxycytidine (ISO)

aristolochic acid A (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

bisphenol A (EXP,ISO)

butanal (ISO)

cadmium dichloride (EXP)

caffeine (ISO)

CGP 52608 (ISO)

cisplatin (ISO)

cyclosporin A (ISO)

dibenzo[a,l]pyrene (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

endosulfan (EXP)

entinostat (ISO)

ethyl methanesulfonate (ISO)

fenvalerate (EXP)

hydrogen peroxide (ISO)

isoprenaline (ISO)

methyl methanesulfonate (ISO)

methylmercury chloride (ISO)

N-isopropyl-N'-phenyl-p-phenylenediamine (ISO)

ozone (ISO)

paracetamol (ISO)

perfluorooctane-1-sulfonic acid (ISO)

potassium chromate (ISO)

propanal (ISO)

SB 431542 (ISO)

sunitinib (ISO)

tamoxifen (ISO)

tetrachloromethane (EXP,ISO)

thioacetamide (EXP)

trichostatin A (ISO)

triptonide (ISO)

urethane (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

biological_process (ND)

glucose homeostasis (ISO)

nervous system development (ISO)

positive regulation of growth hormone receptor signaling pathway (ISO)

regulation of behavior (ISO)

regulation of multicellular organism growth (ISO)

Cellular Component

chromocenter (IBA,ISO)

midbody (IEA,ISO)

nucleoplasm (IEA,ISO)

nucleus (IBA,ISO)

Molecular Function

chromatin binding (IBA,ISO)

DNA binding (ISO)

protein binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Extended spectrum of MBD5 mutations in neurodevelopmental disorders.	Bonnet C, etal., Eur J Hum Genet. 2013 Dec;21(12):1457-61. doi: 10.1038/ejhg.2013.22. Epub 2013 Feb 20.
2.	The expanding role of MBD genes in autism: identification of a MECP2 duplication and novel alterations in MBD5, MBD6, and SETDB1.	Cukier HN, etal., Autism Res. 2012 Dec;5(6):385-97. doi: 10.1002/aur.1251. Epub 2012 Oct 10.
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.	Reciprocal deletion and duplication at 2q23.1 indicates a role for MBD5 in autism spectrum disorder.	Mullegama SV, etal., Eur J Hum Genet. 2014 Jan;22(1):57-63. doi: 10.1038/ejhg.2013.67. Epub 2013 May 1.
5.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
6.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
8.	Comprehensive gene review and curation	RGD comprehensive gene curation
9.	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.
10.	The methyl binding domain containing protein MBD5 is a transcriptional regulator responsible for 2q23.1 deletion syndrome.	Walz K and Young JI, Rare Dis. 2014 Nov 3;2(1):e967151. doi: 10.4161/2167549X.2014.967151. eCollection 2014.

Additional References at PubMed

PMID:19056867	PMID:20700456	PMID:23077600	PMID:23587880

Genomics

Comparative Map Data

Mbd5
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	3	33,588,854 - 33,738,730 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	3	33,333,554 - 33,730,156 (+)	Ensembl		mRatBN7.2 Ensembl
Rnor_6.0	3	33,364,812 - 33,504,144 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	3	33,440,191 - 33,504,238 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	3	38,600,038 - 38,663,451 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	3	31,856,644 - 31,921,520 (+)	NCBI		Celera
Cytogenetic Map	3	q12	NCBI

MBD5
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	148,020,927 - 148,516,971 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	2	148,021,011 - 148,516,971 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	2	148,778,580 - 149,274,540 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	148,932,508 - 148,987,516 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	2	149,049,769 - 149,104,774	NCBI
Celera	2	142,492,728 - 142,985,183 (+)	NCBI		Celera
Cytogenetic Map	2	q23.1	NCBI
HuRef	2	140,776,638 - 141,269,422 (+)	NCBI		HuRef
CHM1_1	2	148,784,226 - 149,276,488 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	2	148,471,381 - 148,967,332 (+)	NCBI		T2T-CHM13v2.0

Mbd5
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	2	48,839,511 - 49,209,702 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	2	48,839,520 - 49,215,417 (+)	Ensembl		GRCm39 Ensembl
GRCm38	2	48,949,499 - 49,319,688 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	2	48,949,508 - 49,325,405 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	2	48,805,028 - 49,172,589 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	2	49,064,365 - 49,139,005 (+)	NCBI		MGSCv36	mm8
Celera	2	50,621,661 - 50,990,507 (+)	NCBI		Celera
Cytogenetic Map	2	C1.1	NCBI
cM Map	2	28.43	NCBI

Mbd5
(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_004955440	14,270,407 - 14,413,597 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955440	14,267,802 - 14,412,949 (+)	NCBI	ChiLan1.0	ChiLan1.0

MBD5
(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	2B	26,428,361 - 26,924,995 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	2B	11,347,218 - 11,842,644 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	2B	152,380,363 - 152,874,042 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2B	152,754,368 - 152,874,042 (+)	Ensembl	panpan1.1		panPan2

MBD5
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	19	49,815,388 - 50,250,071 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	19	50,186,364 - 50,247,398 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	19	50,145,330 - 50,371,739 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	19	51,494,265 - 51,720,677 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	19	51,494,282 - 51,728,134 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	19	50,139,740 - 50,365,810 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	19	50,274,378 - 50,500,930 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	19	51,671,900 - 51,898,368 (+)	NCBI		UU_Cfam_GSD_1.0

Mbd5
(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_024405303	112,486,058 - 112,872,593 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936469	28,744,814 - 28,802,776 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936469	28,748,499 - 28,889,679 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

MBD5
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	15	3,659,012 - 3,725,208 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	15	3,649,859 - 4,096,459 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	15	3,337,836 - 3,346,811 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

MBD5
(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	10	33,401,903 - 33,907,307 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	10	33,743,166 - 33,904,508 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666040	165,632,515 - 166,137,209 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Mbd5
(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_004624866	1,105,616 - 1,162,288 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624866	1,003,279 - 1,162,545 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Mbd5
655 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	22
Count of miRNA genes:	22
Interacting mature miRNAs:	22
Transcripts:	ENSRNOT00000034632
Prediction methods:	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
4889966	Bss95	Bone structure and strength QTL 95	4.4		tibia area (VT:1000281)	tibia-fibula cross-sectional area (CMO:0001718)	3	1	36847613	Rat
2312664	Scl62	Serum cholesterol level QTL 62		0.05	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	3	1	38710544	Rat
631568	Bp92	Blood pressure QTL 92	2.2	0.005	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	1	39874793	Rat
2290452	Scl56	Serum cholesterol level QTL 56	2.26		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	3	1	91609953	Rat
1298526	Arunc3	Aerobic running capacity QTL 3	2.2		exercise endurance trait (VT:0002332)	maximum distance run on treadmill (CMO:0001406)	3	8227194	33703538	Rat
10401810	Kidm53	Kidney mass QTL 53			kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	3	8227194	47233430	Rat
70191	BpQTLcluster4	Blood pressure QTL cluster 4	3		arterial blood pressure trait (VT:2000000)	absolute change in mean arterial blood pressure (CMO:0000533)	3	10778704	50302886	Rat
70191	BpQTLcluster4	Blood pressure QTL cluster 4	3		arterial blood pressure trait (VT:2000000)	absolute change in systolic blood pressure (CMO:0000607)	3	10778704	50302886	Rat
1358905	Hrtrt17	Heart rate QTL 17	5.9	0.000014	heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	3	10861912	89878372	Rat
1358885	Bp251	Blood pressure QTL 251	3.8		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	14489145	121056321	Rat
1358888	Bp264	Blood pressure QTL 264	4.43		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	14489145	121056321	Rat
2298542	Neuinf11	Neuroinflammation QTL 11	3.9		nervous system integrity trait (VT:0010566)	spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)	3	15005422	76927699	Rat
631676	Cm8	Cardiac mass QTL 8	7.03	0.0001	aorta mass (VT:0002845)	aorta weight (CMO:0000076)	3	16954708	61954708	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	17374703	35528639	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	17374703	35528639	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	3	17374703	35528639	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	3	17374703	35528639	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	heart rate (CMO:0000002)	3	17374703	35528639	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	heart rate (CMO:0000002)	3	17374703	35528639	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	body weight (CMO:0000012)	3	17374703	35528639	Rat
634306	Bp140	Blood pressure QTL 140	3.3	0.0013	arterial blood pressure trait (VT:2000000)	body weight (CMO:0000012)	3	17374703	35528639	Rat
731172	Bp151	Blood pressure QTL 151		0.04	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	18311454	47233430	Rat
12879849	Bw180	Body weight QTL 180		0.037	body mass (VT:0001259)	body weight (CMO:0000012)	3	18311454	47233430	Rat
12879850	Cm91	Cardiac mass QTL 91		0.001	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	3	18311454	47233430	Rat
12879851	Cm92	Cardiac mass QTL 92		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	3	18311454	47233430	Rat
12879852	Cm93	Cardiac mass QTL 93		0.001	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	3	18311454	47233430	Rat
12879853	Am5	Aortic mass QTL 5		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	3	18311454	47233430	Rat
12879854	Kidm63	Kidney mass QTL 63		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	3	18311454	47233430	Rat
10450804	Scl70	Serum cholesterol level QTL 70	4.7	0.001	blood LDL cholesterol amount (VT:0000181)	blood low density lipoprotein cholesterol level (CMO:0000053)	3	20714090	65714090	Rat
10450794	Scl69	Serum cholesterol level QTL 69	6.3	0.001	blood LDL cholesterol amount (VT:0000181)	blood low density lipoprotein cholesterol level (CMO:0000053)	3	20714090	65714090	Rat
1298073	Cm13	Cardiac mass QTL 13	2.5		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	3	25013911	38192233	Rat
631832	Sach1	Saccharin preference QTL 1	2.7	0.02	consumption behavior trait (VT:0002069)	calculated saccharin drink intake volume (CMO:0001600)	3	27494621	44188411	Rat
2313049	Bss72	Bone structure and strength QTL 72	2.6	0.0001	tibia area (VT:1000281)	tibia midshaft cross-sectional area (CMO:0001717)	3	27494621	50302886	Rat
2313076	Bss74	Bone structure and strength QTL 74	2	0.0001	tibia strength trait (VT:1000284)	tibia total energy absorbed before break (CMO:0001736)	3	27494621	50302886	Rat
2313079	Bss73	Bone structure and strength QTL 73	1.5		tibia size trait (VT:0100001)	tibia midshaft cross-sectional area (CMO:0001717)	3	27494621	50302886	Rat
2313093	Bmd77	Bone mineral density QTL 77	2.2	0.0001	tibia mineral mass (VT:1000283)	compact volumetric bone mineral density (CMO:0001730)	3	27494621	50302886	Rat
2313101	Bmd76	Bone mineral density QTL 76	3.6	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	3	27494621	50302886	Rat
2302055	Pia30	Pristane induced arthritis QTL 30	3.5	0.001	blood autoantibody amount (VT:0003725)	serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)	3	27936919	72936919	Rat
9590286	Uminl1	Urine mineral level QTL 1	3.5	0.001	urine mineral amount (VT:0015086)	urine electrolyte level (CMO:0000593)	3	28249687	73249687	Rat
8694196	Abfw2	Abdominal fat weight QTL 2	16.58	0.001	visceral adipose mass (VT:0010063)	abdominal fat pad weight to body weight ratio (CMO:0000095)	3	28249687	73249687	Rat
8694386	Bw159	Body weight QTL 159	4.52	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	3	28249687	73249687	Rat
8552950	Pigfal12	Plasma insulin-like growth factor 1 level QTL 12	7.3		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	3	28249687	73249687	Rat
9590136	Scort3	Serum corticosterone level QTL 3	23.37	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	3	28249687	73249687	Rat
2303593	Gluco46	Glucose level QTL 46	3		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	3	28468571	73468571	Rat
1354590	Despr11	Despair related QTL 11		0.000031	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	3	28468571	73468571	Rat
737818	Hcar12	Hepatocarcinoma resistance QTL 12	2.6		liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	3	29463235	118376539	Rat
61419	Cia11	Collagen induced arthritis QTL 11	5.6		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	3	30356773	98535386	Rat
61356	Bp37	Blood pressure QTL 37	3		blood pressure trait (VT:0000183)	systolic blood pressure (CMO:0000004)	3	30684642	75684642	Rat
631647	Bp122	Blood pressure QTL 122	6.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	30684642	75684642	Rat
70216	Cm14	Cardiac mass QTL 14	2.1		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	3	31172320	163586636	Rat
11565451	Bw177	Body weight QTL 177		0.002	body mass (VT:0001259)	body weight (CMO:0000012)	3	31426403	70668733	Rat
11565452	Kidm57	Kidney mass QTL 57		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	3	31426403	70668733	Rat
12879866	Cm94	Cardiac mass QTL 94		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	3	31426403	70668733	Rat
12879867	Cm95	Cardiac mass QTL 95		0.047	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	3	31426403	70668733	Rat
12879868	Am6	Aortic mass QTL 6		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	3	31426403	70668733	Rat
2301400	Cm68	Cardiac mass QTL 68		0.001	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	3	31426403	70668733	Rat
1300169	Bp177	Blood pressure QTL 177	2.96		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	3	33703347	61017857	Rat
1354589	Bw31	Body weight QTL 31	3.3		body mass (VT:0001259)	body weight (CMO:0000012)	3	33703347	78196190	Rat
1354604	Bw36	Body weight QTL 36	2.9		body mass (VT:0001259)	body weight (CMO:0000012)	3	33703347	104104347	Rat

Markers in Region

D3Rat98

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	3	33,703,347 - 33,703,538 (+)	MAPPER	mRatBN7.2
Rnor_6.0	3	33,477,354 - 33,477,544	NCBI	Rnor6.0
Rnor_5.0	3	38,636,977 - 38,637,167	UniSTS	Rnor5.0
RGSC_v3.4	3	30,253,942 - 30,254,280	RGD	RGSC3.4
RGSC_v3.4	3	30,253,945 - 30,254,135	UniSTS	RGSC3.4
RGSC_v3.1	3	30,150,317 - 30,150,507	RGD
Celera	3	31,894,389 - 31,894,579	UniSTS
RH 3.4 Map	3	398.9	RGD
RH 3.4 Map	3	398.9	UniSTS
SHRSP x BN Map	3	15.1498	UniSTS
SHRSP x BN Map	3	15.1498	RGD
FHH x ACI Map	3	23.97	RGD
Cytogenetic Map	3	q12	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			6		6				64	5	22	9
Low	3	43	51	41	13	41	8	11	10	30	19	2	8
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_056985409	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_056985410	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_056985411	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_056985412	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_056985413	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_056985414	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_056985415	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_056985416	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_001837441	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_001842644	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_001842645	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005502930	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005502931	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005502932	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_009624	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_344906	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_344907	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_344909	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC097988	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000115	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000034632 ⟹ ENSRNOP00000031544

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	3	33,440,191 - 33,503,685 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000092907 ⟹ ENSRNOP00000075986

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	3	33,333,554 - 33,730,156 (+)	Ensembl
Rnor_6.0 Ensembl	3	33,440,256 - 33,504,238 (+)	Ensembl

RefSeq Acc Id:

XM_056985409 ⟹ XP_056841389

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	33,588,854 - 33,730,157 (+)	NCBI

RefSeq Acc Id:

XM_056985410 ⟹ XP_056841390

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	33,588,854 - 33,730,157 (+)	NCBI

RefSeq Acc Id:

XM_056985411 ⟹ XP_056841391

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	33,588,854 - 33,730,157 (+)	NCBI

RefSeq Acc Id:

XM_056985412 ⟹ XP_056841392

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	33,588,854 - 33,730,157 (+)	NCBI

RefSeq Acc Id:

XM_056985413 ⟹ XP_056841393

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	33,588,854 - 33,717,386 (+)	NCBI

RefSeq Acc Id:

XM_056985414 ⟹ XP_056841394

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	33,588,854 - 33,730,157 (+)	NCBI

RefSeq Acc Id:

XM_056985415 ⟹ XP_056841395

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	33,588,854 - 33,730,157 (+)	NCBI

RefSeq Acc Id:

XM_056985416 ⟹ XP_056841396

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	33,588,854 - 33,730,157 (+)	NCBI

RefSeq Acc Id:

XR_005502930

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	33,588,854 - 33,733,478 (+)	NCBI

RefSeq Acc Id:

XR_005502931

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	33,588,854 - 33,738,730 (+)	NCBI

RefSeq Acc Id:

XR_005502932

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	33,588,854 - 33,729,809 (+)	NCBI

Protein Sequences


Protein RefSeqs	XP_056841389	(Get FASTA)	NCBI Sequence Viewer
	XP_056841390	(Get FASTA)	NCBI Sequence Viewer
	XP_056841391	(Get FASTA)	NCBI Sequence Viewer
	XP_056841392	(Get FASTA)	NCBI Sequence Viewer
	XP_056841393	(Get FASTA)	NCBI Sequence Viewer
	XP_056841394	(Get FASTA)	NCBI Sequence Viewer
	XP_056841395	(Get FASTA)	NCBI Sequence Viewer
	XP_056841396	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH97988	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000075986
	ENSRNOP00000075986.1
GenBank Protein	Q4QQU4	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

ENSRNOP00000075986 ⟸ ENSRNOT00000092907

RefSeq Acc Id:

ENSRNOP00000031544 ⟸ ENSRNOT00000034632

RefSeq Acc Id:	XP_056841389 ⟸ XM_056985409
- Peptide Label:	isoform X1
- UniProtKB:	A0A1B0GWQ8 (UniProtKB/TrEMBL), A6JEZ4 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_056841396 ⟸ XM_056985416
- Peptide Label:	isoform X5
- UniProtKB:	A6JEZ4 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_056841395 ⟸ XM_056985415
- Peptide Label:	isoform X4
- UniProtKB:	A6JEZ4 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_056841394 ⟸ XM_056985414
- Peptide Label:	isoform X3
- UniProtKB:	A6JEZ4 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_056841391 ⟸ XM_056985411
- Peptide Label:	isoform X1
- UniProtKB:	A0A1B0GWQ8 (UniProtKB/TrEMBL), A6JEZ4 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_056841390 ⟸ XM_056985410
- Peptide Label:	isoform X1
- UniProtKB:	A0A1B0GWQ8 (UniProtKB/TrEMBL), A6JEZ4 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_056841392 ⟸ XM_056985412
- Peptide Label:	isoform X1
- UniProtKB:	A0A1B0GWQ8 (UniProtKB/TrEMBL), A6JEZ4 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_056841393 ⟸ XM_056985413
- Peptide Label:	isoform X2
- UniProtKB:	A6JEZ4 (UniProtKB/TrEMBL)

Protein Domains

MBD

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-A0A1B0GWQ8-F1-model_v2	AlphaFold	A0A1B0GWQ8	1-1733	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:1562961	AgrOrtholog
BioCyc Gene	G2FUF-49767	BioCyc
Ensembl Genes	ENSRNOG00000027596	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000092907	ENTREZGENE
	ENSRNOT00000092907.2	UniProtKB/TrEMBL
Gene3D-CATH	2.30.30.140	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7445092	IMAGE-MGC_LOAD
InterPro	MBD5/MBD6	UniProtKB/TrEMBL
	Methyl_CpG_DNA-bd	UniProtKB/TrEMBL
MGC_CLONE	MGC:116128	IMAGE-MGC_LOAD
NCBI Gene	Mbd5	ENTREZGENE
PANTHER	METHYL-CPG-BINDING DOMAIN PROTEIN 5	UniProtKB/TrEMBL
	PTHR16112	UniProtKB/TrEMBL
PhenoGen	Mbd5	PhenoGen
PROSITE	MBD	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000027596	RatGTEx
SMART	MBD	UniProtKB/TrEMBL
Superfamily-SCOP	Tudor/PWWP/MBT	UniProtKB/TrEMBL
UniProt	A0A1B0GWQ8	ENTREZGENE, UniProtKB/TrEMBL
	A6JEZ4	ENTREZGENE, UniProtKB/TrEMBL
	Q4QQU4_RAT	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-04-20	Mbd5	methyl-CpG binding domain protein 5	Mbd5	methyl-CpG binding domain protein 5	Type changed (type changed from [gene] to [protein-coding])	629549	APPROVED
2013-08-09	Mbd5	methyl-CpG binding domain protein 5	LOC311026	similar to mKIAA1461 protein	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-02-09	LOC311026	similar to mKIAA1461 protein			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)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - MGI

Imported Disease Annotations - OMIM

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Imported Disease Annotations - ClinVar

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