MBD6 (methyl-CpG binding domain protein 6) - Rat Genome Database

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Gene: MBD6 (methyl-CpG binding domain protein 6) Sus scrofa
Analyze
Symbol: MBD6
Name: methyl-CpG binding domain protein 6
RGD ID: 13893052
Description: ENCODES a protein that exhibits DNA binding (ortholog); ASSOCIATED WITH autism spectrum disorder (ortholog); Charcot-Marie-Tooth disease axonal type 2U (ortholog); familial melanoma (ortholog); FOUND IN chromocenter (inferred); fibrillar center (inferred); nucleoplasm (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: methyl-CpG-binding domain protein 6
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl522,791,437 - 22,799,126 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1522,790,220 - 22,799,131 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2524,754,021 - 24,761,374 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
chromocenter  (IBA,IEA)
fibrillar center  (IEA)
nucleoplasm  (IEA)
nucleus  (IBA,IEA)

Molecular Function
chromatin binding  (IBA,IEA)
DNA binding  (IEA,ISO)
protein binding  (ISO)

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
MBD6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl522,791,437 - 22,799,126 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1522,790,220 - 22,799,131 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2524,754,021 - 24,761,374 (+)NCBISscrofa10.2Sscrofa10.2susScr3
MBD6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381257,520,715 - 57,531,545 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1257,520,710 - 57,530,148 (+)EnsemblGRCh38hg38GRCh38
GRCh371257,916,607 - 57,923,931 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361256,202,926 - 56,210,198 (+)NCBINCBI36Build 36hg18NCBI36
Build 341256,202,925 - 56,210,198NCBI
Celera1257,572,491 - 57,579,763 (+)NCBICelera
Cytogenetic Map12q13.3NCBI
HuRef1254,932,323 - 54,961,829 (+)NCBIHuRef
CHM1_11257,884,526 - 57,891,756 (+)NCBICHM1_1
T2T-CHM13v2.01257,488,889 - 57,498,388 (+)NCBIT2T-CHM13v2.0
Mbd6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3910127,117,825 - 127,126,738 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl10127,117,825 - 127,124,887 (-)EnsemblGRCm39 Ensembl
GRCm3810127,281,956 - 127,290,869 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl10127,281,956 - 127,289,018 (-)EnsemblGRCm38mm10GRCm38
MGSCv3710126,719,012 - 126,725,827 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3610126,684,905 - 126,691,720 (-)NCBIMGSCv36mm8
Celera10129,674,397 - 129,680,132 (-)NCBICelera
Cytogenetic Map10D3NCBI
cM Map1074.5NCBI
Mbd6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8764,992,877 - 65,001,274 (-)NCBIGRCr8
mRatBN7.2763,107,562 - 63,115,841 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl763,107,562 - 63,113,274 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx764,996,836 - 65,002,548 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0767,199,256 - 67,204,968 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0767,000,607 - 67,006,319 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0770,571,435 - 70,580,146 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl770,571,435 - 70,577,147 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0770,745,585 - 70,752,317 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4767,239,304 - 67,245,037 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1767,260,033 - 67,265,767 (-)NCBI
Celera760,248,101 - 60,253,813 (-)NCBICelera
Cytogenetic Map7q22NCBI
Mbd6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554585,238,570 - 5,247,711 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554585,238,570 - 5,247,711 (+)NCBIChiLan1.0ChiLan1.0
MBD6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21036,810,961 - 36,818,440 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11236,807,732 - 36,817,469 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01231,396,733 - 31,404,126 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11231,655,461 - 31,664,638 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1231,655,461 - 31,664,638 (-)Ensemblpanpan1.1panPan2
MBD6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1101,611,462 - 1,620,546 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl101,613,643 - 1,619,745 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha101,674,704 - 1,683,709 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0101,620,536 - 1,629,548 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl101,621,929 - 1,629,548 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1101,598,546 - 1,607,549 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0101,840,434 - 1,849,437 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0101,965,429 - 1,974,435 (+)NCBIUU_Cfam_GSD_1.0
Mbd6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494557,191,723 - 57,200,920 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049366461,669,281 - 1,678,512 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MBD6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11153,431,423 - 53,438,719 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1153,432,903 - 53,437,817 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037192,524,292 - 192,532,894 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Mbd6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462480210,428,782 - 10,437,777 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462480210,428,782 - 10,437,992 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in MBD6
88 total Variants

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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium
Low 9 4 3 5 2 22 2 3 3
Below cutoff 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000000465   ⟹   ENSSSCP00000000458
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl522,791,437 - 22,799,126 (+)Ensembl
RefSeq Acc Id: XM_013997655   ⟹   XP_013853109
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1522,790,220 - 22,799,131 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_013853109   ⟸   XM_013997655
- UniProtKB: A0A8D0K1Q3 (UniProtKB/TrEMBL),   A0A8D0JXD0 (UniProtKB/TrEMBL),   A0A8D1JCW0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000000458   ⟸   ENSSSCT00000000465
Protein Domains
MBD


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000000431 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005031809 UniProtKB/TrEMBL
  ENSSSCG00015006057 UniProtKB/TrEMBL
  ENSSSCG00025021005 UniProtKB/TrEMBL
  ENSSSCG00035077821 UniProtKB/TrEMBL
  ENSSSCG00045037494 UniProtKB/TrEMBL
  ENSSSCG00055024156 UniProtKB/TrEMBL
  ENSSSCG00065030866 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000000465 ENTREZGENE
  ENSSSCT00000000465.4 UniProtKB/TrEMBL
  ENSSSCT00005050719.1 UniProtKB/TrEMBL
  ENSSSCT00005050758.1 UniProtKB/TrEMBL
  ENSSSCT00005050786.1 UniProtKB/TrEMBL
  ENSSSCT00015008055.1 UniProtKB/TrEMBL
  ENSSSCT00015008083.1 UniProtKB/TrEMBL
  ENSSSCT00015008091.1 UniProtKB/TrEMBL
  ENSSSCT00025028590.1 UniProtKB/TrEMBL
  ENSSSCT00025028625.1 UniProtKB/TrEMBL
  ENSSSCT00035106243.1 UniProtKB/TrEMBL
  ENSSSCT00045064756.1 UniProtKB/TrEMBL
  ENSSSCT00045064790.1 UniProtKB/TrEMBL
  ENSSSCT00055047781.1 UniProtKB/TrEMBL
  ENSSSCT00055047950.1 UniProtKB/TrEMBL
  ENSSSCT00065041738.1 UniProtKB/TrEMBL
  ENSSSCT00065041749.1 UniProtKB/TrEMBL
InterPro DNA-bd_dom_sf UniProtKB/TrEMBL
  Methyl_CpG_DNA-bd UniProtKB/TrEMBL
NCBI Gene MBD6 ENTREZGENE
PANTHER METHYL-CPG-BINDING DOMAIN PROTEIN 6 UniProtKB/TrEMBL
  PTHR16112 UniProtKB/TrEMBL
PROSITE MBD UniProtKB/TrEMBL
SMART MBD UniProtKB/TrEMBL
Superfamily-SCOP SSF54171 UniProtKB/TrEMBL
UniProt A0A8D0JXD0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0K1Q3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1JCW0 ENTREZGENE
  F1SL57_PIG UniProtKB/TrEMBL
UniProt Secondary A0A8D1JCW0 UniProtKB/TrEMBL
VGNC ID VGNC:90051 ENTREZGENE