Mbd1 (methyl-CpG binding domain protein 1) - Rat Genome Database

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Gene: Mbd1 (methyl-CpG binding domain protein 1) Rattus norvegicus
Analyze
Symbol: Mbd1
Name: methyl-CpG binding domain protein 1
RGD ID: 1305980
Description: Enables chromatin binding activity. Involved in several processes, including negative regulation of astrocyte differentiation; regulation of gene expression; and response to estradiol. Located in chromatin. Biomarker of transient cerebral ischemia. Human ortholog(s) of this gene implicated in lung cancer. Orthologous to human MBD1 (methyl-CpG binding domain protein 1); PARTICIPATES IN DNA modification pathway; INTERACTS WITH 2,4-dinitrotoluene; 6-propyl-2-thiouracil; amitrole.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC291439; methyl-CpG-binding domain protein 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81870,145,093 - 70,159,744 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1870,145,114 - 70,159,703 (+)EnsemblGRCr8
mRatBN7.21867,869,870 - 67,884,501 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1867,869,992 - 67,886,554 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1869,978,196 - 69,992,672 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01870,643,315 - 70,657,818 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01868,509,485 - 68,523,993 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01870,248,568 - 70,263,190 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1870,248,713 - 70,263,164 (+)Ensemblrn6Rnor6.0
Rnor_5.01869,390,120 - 69,404,741 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41871,068,257 - 71,082,734 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1866,048,059 - 66,062,538 (+)NCBICelera
RGSC_v3.11871,141,457 - 71,155,910 (+)NCBI
Cytogenetic Map18q12.2NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2,4-dinitrotoluene  (EXP)
2-butan-2-yl-4-[4-[4-[4-[[2-(2,4-dichlorophenyl)-2-(1,2,4-triazol-1-ylmethyl)-1,3-dioxolan-4-yl]methoxy]phenyl]-1-piperazinyl]phenyl]-1,2,4-triazol-3-one  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
acrolein  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
amitrole  (EXP)
aristolochic acid A  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bortezomib  (ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
carbon nanotube  (ISO)
chlordecone  (ISO)
chloroprene  (ISO)
choline  (ISO)
ciguatoxin CTX1B  (ISO)
clofibrate  (EXP)
cocaine  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
coumarin  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
DDE  (ISO)
Dibutyl phosphate  (ISO)
dioxygen  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
enzyme inhibitor  (ISO)
epoxiconazole  (ISO)
fenthion  (ISO)
fluoxetine  (EXP)
flutamide  (EXP)
folic acid  (ISO)
FR900359  (ISO)
gallic acid  (ISO)
gentamycin  (EXP)
isoprenaline  (ISO)
itraconazole  (ISO)
L-methionine  (ISO)
methimazole  (EXP)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
morphine  (ISO)
N-ethyl-N-nitrosourea  (ISO)
N-nitrosodiethylamine  (ISO)
nitrates  (ISO)
ozone  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
pentachlorophenol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (EXP,ISO)
phosgene  (ISO)
pirinixic acid  (ISO)
propiconazole  (EXP)
resveratrol  (ISO)
selenium atom  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
sulfadimethoxine  (EXP)
tamoxifen  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
chromatin  (IDA,ISO)
chromosome  (IEA)
cytoplasm  (ISO)
heterochromatin  (ISO)
nuclear matrix  (IEA,ISO)
nuclear speck  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. The loss of methyl-CpG binding protein 1 leads to autism-like behavioral deficits. Allan AM, etal., Hum Mol Genet. 2008 Jul 1;17(13):2047-57. doi: 10.1093/hmg/ddn102. Epub 2008 Apr 1.
2. On how mammalian transcription factors recognize methylated DNA. Buck-Koehntop BA and Defossez PA, Epigenetics. 2013 Feb;8(2):131-7. doi: 10.4161/epi.23632. Epub 2013 Jan 16.
3. Fluoxetine and cocaine induce the epigenetic factors MeCP2 and MBD1 in adult rat brain. Cassel S, etal., Mol Pharmacol. 2006 Aug;70(2):487-92. Epub 2006 May 2.
4. Kindling induces the mRNA expression of methyl DNA-binding factors in the adult rat hippocampus. Francis J, etal., Neuroscience. 2002;113(1):79-87.
5. 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.
6. A folate- and methyl-deficient diet alters the expression of DNA methyltransferases and methyl CpG binding proteins involved in epigenetic gene silencing in livers of F344 rats. Ghoshal K, etal., J Nutr. 2006 Jun;136(6):1522-7.
7. Methyl-CpG binding domain 1 gene polymorphisms and risk of primary lung cancer. Jang JS, etal., Cancer Epidemiol Biomarkers Prev. 2005 Nov;14(11 Pt 1):2474-80.
8. Transient forebrain ischemia alters the mRNA expression of methyl DNA-binding factors in the adult rat hippocampus. Jung BP, etal., Neuroscience. 2002;115(2):515-24.
9. Epigenetic regulation of neonatal cardiomyocytes differentiation. Kou CY, etal., Biochem Biophys Res Commun. 2010 Sep 17;400(2):278-83. doi: 10.1016/j.bbrc.2010.08.064. Epub 2010 Aug 22.
10. Epigenetic regulation of the stem cell mitogen Fgf-2 by Mbd1 in adult neural stem/progenitor cells. Li X, etal., J Biol Chem. 2008 Oct 10;283(41):27644-52. doi: 10.1074/jbc.M804899200. Epub 2008 Aug 8.
11. Methyl-CpG binding domain 1 gene polymorphisms and lung cancer risk in a Chinese population. Liu H, etal., Biomarkers. 2008 Sep;13(6):607-17. doi: 10.1080/13547500802168031 .
12. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
13. GOA pipeline RGD automated data pipeline
14. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
15. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
16. Methyl-CpG binding proteins are involved in restricting differentiation plasticity in neurons. Setoguchi H, etal., J Neurosci Res. 2006 Oct;84(5):969-79.
17. Cellular epigenetic modifications of neural stem cell differentiation. Singh RP, etal., Cell Transplant. 2009;18(10):1197-211. doi: 10.3727/096368909X12483162197204. Epub 2009 Aug 5.
18. Neonatal exposure to estradiol/bisphenol A alters promoter methylation and expression of Nsbp1 and Hpcal1 genes and transcriptional programs of Dnmt3a/b and Mbd2/4 in the rat prostate gland throughout life. Tang WY, etal., Endocrinology. 2012 Jan;153(1):42-55. doi: 10.1210/en.2011-1308. Epub 2011 Nov 22.
Additional References at PubMed
PMID:9774669   PMID:11371345   PMID:12477932   PMID:14519686   PMID:15777793   PMID:17546630   PMID:18604195   PMID:25284789   PMID:29276034   PMID:32638524  


Genomics

Comparative Map Data
Mbd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81870,145,093 - 70,159,744 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1870,145,114 - 70,159,703 (+)EnsemblGRCr8
mRatBN7.21867,869,870 - 67,884,501 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1867,869,992 - 67,886,554 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1869,978,196 - 69,992,672 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01870,643,315 - 70,657,818 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01868,509,485 - 68,523,993 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01870,248,568 - 70,263,190 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1870,248,713 - 70,263,164 (+)Ensemblrn6Rnor6.0
Rnor_5.01869,390,120 - 69,404,741 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41871,068,257 - 71,082,734 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1866,048,059 - 66,062,538 (+)NCBICelera
RGSC_v3.11871,141,457 - 71,155,910 (+)NCBI
Cytogenetic Map18q12.2NCBI
MBD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381850,266,885 - 50,281,767 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1850,266,746 - 50,281,846 (-)Ensemblhg38GRCh38
GRCh371847,793,255 - 47,808,137 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361846,049,214 - 46,062,142 (-)NCBIBuild 36Build 36hg18NCBI36
Celera1844,651,771 - 44,664,698 (-)NCBICelera
Cytogenetic Map18q21.1NCBI
HuRef1844,647,697 - 44,662,584 (-)NCBIHuRef
CHM1_11847,788,841 - 47,803,733 (-)NCBICHM1_1
T2T-CHM13v2.01850,468,627 - 50,483,509 (-)NCBIT2T-CHM13v2.0
Mbd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391874,400,676 - 74,415,808 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1874,400,676 - 74,415,803 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381874,267,605 - 74,282,737 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1874,267,605 - 74,282,732 (+)Ensemblmm10GRCm38
MGSCv371874,427,942 - 74,442,338 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361874,393,660 - 74,408,054 (+)NCBIMGSCv36mm8
Celera1875,497,613 - 75,512,033 (+)NCBICelera
Cytogenetic Map18E2NCBI
cM Map1850.7NCBI
Mbd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540235,319,810 - 35,334,678 (-)Ensembl
ChiLan1.0NW_00495540235,320,755 - 35,334,751 (-)NCBIChiLan1.0ChiLan1.0
MBD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21767,796,740 - 67,809,690 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11853,489,343 - 53,502,163 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01843,647,395 - 43,662,266 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11846,996,905 - 47,009,831 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1846,996,905 - 47,009,831 (-)EnsemblpanPan2panpan1.1
MBD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1778,597,688 - 78,611,303 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl778,597,746 - 78,651,472 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha778,002,061 - 78,017,756 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0778,661,476 - 78,677,177 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl778,661,468 - 78,674,941 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1778,374,132 - 78,389,826 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0778,406,559 - 78,422,248 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0778,691,272 - 78,706,975 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Mbd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494437,609,864 - 37,629,471 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649712,848,874 - 12,871,639 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493649712,848,918 - 12,868,504 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MBD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl199,900,801 - 99,917,323 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1199,848,193 - 99,917,347 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21109,589,957 - 109,606,298 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103222426
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11830,675,419 - 30,690,111 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1830,675,653 - 30,685,946 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660504,822,001 - 4,835,406 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Mbd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477813,896,447 - 13,907,656 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462477813,892,179 - 13,907,576 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Mbd1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11557,666,542 - 57,681,023 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Mbd1
200 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:392
Count of miRNA genes:213
Interacting mature miRNAs:250
Transcripts:ENSRNOT00000032202
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331733Bp233Blood pressure QTL 2333.97196arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182507112683910656Rat
1331730Scl27Serum cholesterol level QTL 273.826blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)185449080186134022Rat
1331741Bp232Blood pressure QTL 2323.59112arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182349405785487725Rat
1331742Bp228Blood pressure QTL 2283.88752arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183161050577371277Rat
1298072Cia26Collagen induced arthritis QTL 263.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)186438376279484311Rat
631834Sach3Saccharin preference QTL 33.90.01consumption behavior trait (VT:0002069)calculated saccharin drink intake volume (CMO:0001600)183857591983575919Rat
12904668Bw188Body weight QTL 1880.03body mass (VT:0001259)body weight (CMO:0000012)182682218671822186Rat
12904669Cm125Cardiac mass QTL 1250.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)182682218671822186Rat
6893683Bw110Body weight QTL 1102.70.002body mass (VT:0001259)body weight (CMO:0000012)184562030686134022Rat
12904670Cm126Cardiac mass QTL 1260.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)182682218671822186Rat
7794793Mcs34Mammary carcinoma susceptibility QTL 341.54mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)186563556785897775Rat
12904677Kidm72Kidney mass QTL 720.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)182682218671822186Rat
9589041Epfw12Epididymal fat weight QTL 1217.080.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)184891573786134022Rat
8694432Bw165Body weight QTL 1653.810.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)184891573786134022Rat
12904673Cm127Cardiac mass QTL 1270.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)182682218671822186Rat
12904675Am19Aortic mass QTL 190.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)182682218671822186Rat
1331774Bp226Blood pressure QTL 2264.41065arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183161050577371277Rat
9589816Gluco68Glucose level QTL 687.250.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)183199089176990891Rat
1331770Bp234Blood pressure QTL 2343.807arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)184562030686134022Rat
2301969Bp324Blood pressure QTL 3244.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)186198220476619168Rat
2303120Mamtr8Mammary tumor resistance QTL 80.001mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)183161050585493247Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181206648285493247Rat
12880368Bw187Body weight QTL 1870.045body mass (VT:0001259)body weight (CMO:0000012)183337915878379158Rat
724542Kidm2Kidney mass QTL 22.6kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)186144685386134022Rat
61367Iddm4Insulin dependent diabetes mellitus QTL 42.330.0074blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)184046238385462383Rat
1359020Ppulsi2Prepulse inhibition QTL 22.71prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)185449080176272247Rat
2312600Bp341Blood pressure QTL 3410.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)186160038472538878Rat
9590318Scort22Serum corticosterone level QTL 227.640.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)183199089176990891Rat
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181206648285493247Rat
1331754Bp230Blood pressure QTL 2304.61609arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)181564228086134022Rat
12904069Cm123Cardiac mass QTL 1230.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)183337915878379158Rat
1331798Bp224Blood pressure QTL 2243.53873arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183161050577371277Rat
12904070Cm124Cardiac mass QTL 1240.01heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)183337915878379158Rat
2303584Gluco55Glucose level QTL 552blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)185079521286134022Rat
12904071Am18Aortic mass QTL 180.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)183337915878379158Rat
2301413Bp318Blood pressure QTL 3180.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182682218671822186Rat
61383Bp47Blood pressure QTL 4717.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)183152278376522783Rat
12904067Cm122Cardiac mass QTL 1220.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)183337915878379158Rat
61384Bp48Blood pressure QTL 4819.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)186289225779484461Rat
2301417Bp319Blood pressure QTL 3190.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183337915878379158Rat
12904073Kidm71Kidney mass QTL 710.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)183337915878379158Rat
738008Hcar14Hepatocarcinoma resistance QTL 144.3liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion number (CMO:0001462)185782524385493247Rat
1331776Bp225Blood pressure QTL 2252.829arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)183161050577371277Rat
631518Bw11Body weight QTL 112.8body mass (VT:0001259)body weight (CMO:0000012)183612162681121626Rat
1641923Colcr8Colorectal carcinoma resistance QTL 83.10.0014intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)183199089176990891Rat
8694366Abfw8Abdominal fat weight QTL 86.380.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)184891573786134022Rat
631509Sald2Serum aldosterone level QTL 22.9blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)182641582171415821Rat
631274Sprol1Serum protein level QTL 15.3blood total protein amount (VT:0005567)serum total protein level (CMO:0000661)183164450879484311Rat
1358193Emca2Estrogen-induced mammary cancer QTL 21.6mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)186584644786134022Rat
1598832Glom11Glomerulus QTL 112.9kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)185326667186134022Rat
1600373Mamtr6Mammary tumor resistance QTL 6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)181955353285493247Rat
8694378Bw157Body weight QTL 1573.590.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)183199089176990891Rat
2303571Bw92Body weight QTL 923body mass (VT:0001259)body weight (CMO:0000012)185079521286134022Rat
631675Iddm15Insulin dependent diabetes mellitus QTL 15urine glucose amount (VT:0001758)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)186289225779484461Rat
61429Cia17Collagen induced arthritis QTL 174.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)183161050572538878Rat

Markers in Region
BF389035  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21867,871,332 - 67,871,457 (+)MAPPERmRatBN7.2
Rnor_6.01870,250,024 - 70,250,148NCBIRnor6.0
Rnor_5.01869,391,571 - 69,391,695UniSTSRnor5.0
RGSC_v3.41871,069,568 - 71,069,692UniSTSRGSC3.4
Celera1866,049,370 - 66,049,494UniSTS
RH 3.4 Map18685.3UniSTS
Cytogenetic Map18q12.2UniSTS
RH135120  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81870,157,904 - 70,158,091 (+)Marker Load Pipeline
mRatBN7.21867,882,676 - 67,882,863 (+)MAPPERmRatBN7.2
Rnor_6.01870,261,366 - 70,261,552NCBIRnor6.0
Rnor_5.01869,402,913 - 69,403,099UniSTSRnor5.0
RGSC_v3.41871,080,911 - 71,081,097UniSTSRGSC3.4
Celera1866,060,715 - 66,060,901UniSTS
RH 3.4 Map18685.3UniSTS
Cytogenetic Map18q12.2UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001011924 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001437371 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001437372 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001437373 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001437374 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001437375 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001437376 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001437377 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254909 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254910 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254911 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254913 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254914 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772105 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600882 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600883 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096640 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063277170 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063277171 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063277172 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_361462 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC081932 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000018 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000019573   ⟹   ENSRNOP00000019573
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1870,145,114 - 70,159,703 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000032202   ⟹   ENSRNOP00000037640
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1870,145,114 - 70,159,702 (+)Ensembl
mRatBN7.2 Ensembl1867,870,022 - 67,884,475 (+)Ensembl
Rnor_6.0 Ensembl1870,248,713 - 70,263,164 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000099489   ⟹   ENSRNOP00000097486
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1867,869,992 - 67,886,554 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000102132   ⟹   ENSRNOP00000078508
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1870,145,278 - 70,159,703 (+)Ensembl
mRatBN7.2 Ensembl1867,869,998 - 67,884,485 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000111311   ⟹   ENSRNOP00000086562
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1870,145,241 - 70,158,241 (+)Ensembl
mRatBN7.2 Ensembl1867,869,998 - 67,883,010 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000113558   ⟹   ENSRNOP00000097211
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1870,145,228 - 70,159,703 (+)Ensembl
mRatBN7.2 Ensembl1867,869,998 - 67,884,485 (+)Ensembl
RefSeq Acc Id: NM_001011924   ⟹   NP_001011924
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81870,145,252 - 70,159,728 (+)NCBI
mRatBN7.21867,870,022 - 67,884,500 (+)NCBI
Rnor_6.01870,248,713 - 70,263,189 (+)NCBI
Rnor_5.01869,390,120 - 69,404,741 (+)NCBI
RGSC_v3.41871,068,257 - 71,082,734 (+)RGD
Celera1866,048,059 - 66,062,538 (+)RGD
Sequence:
RefSeq Acc Id: XM_006254909   ⟹   XP_006254971
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81870,145,117 - 70,159,744 (+)NCBI
mRatBN7.21867,869,877 - 67,884,501 (+)NCBI
Rnor_6.01870,248,571 - 70,263,190 (+)NCBI
Rnor_5.01869,390,120 - 69,404,741 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006254910   ⟹   XP_006254972
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81870,145,119 - 70,159,744 (+)NCBI
mRatBN7.21867,869,876 - 67,884,501 (+)NCBI
Rnor_6.01870,248,570 - 70,263,190 (+)NCBI
Rnor_5.01869,390,120 - 69,404,741 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006254911   ⟹   XP_006254973
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81870,145,093 - 70,159,744 (+)NCBI
mRatBN7.21867,869,877 - 67,884,501 (+)NCBI
Rnor_6.01870,248,571 - 70,263,190 (+)NCBI
Rnor_5.01869,390,120 - 69,404,741 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006254913   ⟹   XP_006254975
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81870,145,093 - 70,159,744 (+)NCBI
mRatBN7.21867,869,879 - 67,884,501 (+)NCBI
Rnor_6.01870,248,572 - 70,263,190 (+)NCBI
Rnor_5.01869,390,120 - 69,404,741 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006254914   ⟹   XP_006254976
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81870,145,119 - 70,159,744 (+)NCBI
mRatBN7.21867,869,879 - 67,884,501 (+)NCBI
Rnor_6.01870,248,572 - 70,263,190 (+)NCBI
Rnor_5.01869,390,120 - 69,404,741 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600882   ⟹   XP_017456371
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81870,145,119 - 70,159,744 (+)NCBI
mRatBN7.21867,869,870 - 67,884,501 (+)NCBI
Rnor_6.01870,248,570 - 70,263,190 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600883   ⟹   XP_017456372
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81870,145,117 - 70,159,744 (+)NCBI
mRatBN7.21867,869,876 - 67,884,501 (+)NCBI
Rnor_6.01870,248,570 - 70,263,190 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039096640   ⟹   XP_038952568
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81870,145,117 - 70,159,744 (+)NCBI
mRatBN7.21867,869,877 - 67,884,501 (+)NCBI
RefSeq Acc Id: XM_063277170   ⟹   XP_063133240
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81870,145,119 - 70,159,744 (+)NCBI
RefSeq Acc Id: XM_063277171   ⟹   XP_063133241
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81870,145,119 - 70,159,744 (+)NCBI
RefSeq Acc Id: XM_063277172   ⟹   XP_063133242
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81870,145,119 - 70,159,744 (+)NCBI
RefSeq Acc Id: XR_361462
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81870,145,117 - 70,159,744 (+)NCBI
mRatBN7.21867,869,877 - 67,884,501 (+)NCBI
Rnor_6.01870,248,571 - 70,263,190 (+)NCBI
Rnor_5.01869,390,120 - 69,404,741 (+)NCBI
Sequence:
RefSeq Acc Id: NP_001011924   ⟸   NM_001011924
- UniProtKB: Q66HB8 (UniProtKB/TrEMBL),   A0A8I6GMJ2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006254973   ⟸   XM_006254911
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006254971   ⟸   XM_006254909
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006254972   ⟸   XM_006254910
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006254975   ⟸   XM_006254913
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_006254976   ⟸   XM_006254914
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_017456372   ⟸   XM_017600883
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017456371   ⟸   XM_017600882
- Peptide Label: isoform X6
- Sequence:
Ensembl Acc Id: ENSRNOP00000037640   ⟸   ENSRNOT00000032202
RefSeq Acc Id: XP_038952568   ⟸   XM_039096640
- Peptide Label: isoform X5
- UniProtKB: A0A8I6AS94 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000078508   ⟸   ENSRNOT00000102132
Ensembl Acc Id: ENSRNOP00000097486   ⟸   ENSRNOT00000099489
Ensembl Acc Id: ENSRNOP00000097211   ⟸   ENSRNOT00000113558
Ensembl Acc Id: ENSRNOP00000086562   ⟸   ENSRNOT00000111311
RefSeq Acc Id: XP_063133242   ⟸   XM_063277172
- Peptide Label: isoform X11
- UniProtKB: A0A8I6AS94 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063133240   ⟸   XM_063277170
- Peptide Label: isoform X7
- UniProtKB: A0A8I6AS94 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063133241   ⟸   XM_063277171
- Peptide Label: isoform X10
- UniProtKB: A0A8I5ZMU8 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000019573   ⟸   ENSRNOT00000019573
Protein Domains
CXXC-type   MBD

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q66HB8-F1-model_v2 AlphaFold Q66HB8 1-533 view protein structure

Transcriptome

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

Promoters
RGD ID:13700865
Promoter ID:EPDNEW_R11388
Type:initiation region
Name:Mbd1_1
Description:methyl-CpG binding domain protein 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01870,248,700 - 70,248,760EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305980 AgrOrtholog
BioCyc Gene G2FUF-7032 BioCyc
Ensembl Genes ENSRNOG00000024104 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000019573 ENTREZGENE
  ENSRNOT00000032202 ENTREZGENE
  ENSRNOT00000032202.6 UniProtKB/TrEMBL
  ENSRNOT00000102132 ENTREZGENE
  ENSRNOT00000102132.2 UniProtKB/TrEMBL
  ENSRNOT00000111311.2 UniProtKB/TrEMBL
  ENSRNOT00000113558 ENTREZGENE
  ENSRNOT00000113558.2 UniProtKB/TrEMBL
Gene3D-CATH Methyl-cpg-binding Protein 2, Chain A UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7114194 IMAGE-MGC_LOAD
InterPro DNA-bd_integrase-typ UniProtKB/TrEMBL
  Methyl_CpG_DNA-bd UniProtKB/TrEMBL
  Znf_CXXC UniProtKB/TrEMBL
KEGG Report rno:291439 UniProtKB/TrEMBL
MGC_CLONE MGC:93958 IMAGE-MGC_LOAD
NCBI Gene 291439 ENTREZGENE
PANTHER METHYL-CPG BINDING PROTEIN, MBD UniProtKB/TrEMBL
  METHYL-CPG-BINDING DOMAIN PROTEIN 1 UniProtKB/TrEMBL
Pfam MBD UniProtKB/TrEMBL
  zf-CXXC UniProtKB/TrEMBL
PhenoGen Mbd1 PhenoGen
PROSITE MBD UniProtKB/TrEMBL
  ZF_CXXC UniProtKB/TrEMBL
RatGTEx ENSRNOG00000024104 RatGTEx
SMART MBD UniProtKB/TrEMBL
Superfamily-SCOP DNA-binding_integrase-type UniProtKB/TrEMBL
UniProt A0A8I5ZMU8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A3W5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AS94 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6GMJ2 ENTREZGENE
  F7F4K0_RAT UniProtKB/TrEMBL
  Q66HB8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-12-06 Mbd1  methyl-CpG binding domain protein 1  Mbd1_predicted  methyl-CpG binding domain protein 1 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Mbd1_predicted  methyl-CpG binding domain protein 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED