Mbd5 (methyl-CpG binding domain protein 5) - Rat Genome Database

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Gene: Mbd5 (methyl-CpG binding domain protein 5) Ictidomys tridecemlineatus
Analyze
Symbol: Mbd5
Name: methyl-CpG binding domain protein 5
RGD ID: 12717026
Description: ENCODES a protein that exhibits DNA binding (ortholog); INVOLVED IN glucose homeostasis (ortholog); nervous system development (ortholog); positive regulation of growth hormone receptor signaling pathway (ortholog); ASSOCIATED WITH atrial fibrillation (ortholog); autism spectrum disorder (ortholog); autistic disorder (ortholog); FOUND IN chromocenter (inferred); midbody (inferred); nucleoplasm (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LOC110596916; methyl-CpG binding domain protein 5, transcript variant X1; methyl-CpG binding domain protein 5, transcript variant X2; methyl-CpG binding domain protein 5, transcript variant X3; methyl-CpG binding domain protein 5, transcript variant X4; methyl-CpG binding domain protein 5, transcript variant X5; methyl-CpG binding domain protein 5, transcript variant X6; methyl-CpG binding domain protein 5, transcript variant X7; methyl-CpG-binding domain protein 5; uncharacterized LOC110596916
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303112,486,058 - 112,872,593 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493646928,744,814 - 28,802,776 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493646928,748,499 - 28,889,679 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Mbd5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303112,486,058 - 112,872,593 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493646928,744,814 - 28,802,776 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493646928,748,499 - 28,889,679 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MBD5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382148,020,927 - 148,516,971 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2148,021,011 - 148,516,971 (+)EnsemblGRCh38hg38GRCh38
GRCh372148,778,580 - 149,274,540 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362148,932,508 - 148,987,516 (+)NCBINCBI36Build 36hg18NCBI36
Build 342149,049,769 - 149,104,774NCBI
Celera2142,492,728 - 142,985,183 (+)NCBICelera
Cytogenetic Map2q23.1NCBI
HuRef2140,776,638 - 141,269,422 (+)NCBIHuRef
CHM1_12148,784,226 - 149,276,488 (+)NCBICHM1_1
T2T-CHM13v2.02148,471,381 - 148,967,332 (+)NCBIT2T-CHM13v2.0
Mbd5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39248,839,511 - 49,209,702 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl248,839,520 - 49,215,417 (+)EnsemblGRCm39 Ensembl
GRCm38248,949,499 - 49,319,688 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl248,949,508 - 49,325,405 (+)EnsemblGRCm38mm10GRCm38
MGSCv37248,805,028 - 49,172,589 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36249,064,365 - 49,139,005 (+)NCBIMGSCv36mm8
Celera250,621,661 - 50,990,507 (+)NCBICelera
Cytogenetic Map2C1.1NCBI
cM Map228.43NCBI
Mbd5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8353,742,458 - 54,147,970 (+)NCBIGRCr8
mRatBN7.2333,588,854 - 33,738,730 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl333,333,554 - 33,730,156 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0333,364,812 - 33,504,144 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl333,440,191 - 33,504,238 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0338,600,038 - 38,663,451 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera331,856,644 - 31,921,520 (+)NCBICelera
Cytogenetic Map3q12NCBI
Mbd5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544014,270,407 - 14,413,597 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544014,267,802 - 14,412,949 (+)NCBIChiLan1.0ChiLan1.0
MBD5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21326,413,395 - 26,910,550 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B26,428,361 - 26,924,995 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B11,347,218 - 11,842,644 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B152,380,363 - 152,874,042 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B152,754,368 - 152,874,042 (+)Ensemblpanpan1.1panPan2
MBD5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11949,815,388 - 50,250,071 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1950,186,364 - 50,247,398 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1950,145,330 - 50,371,739 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01951,494,265 - 51,720,677 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1951,494,282 - 51,728,134 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11950,139,740 - 50,365,810 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01950,274,378 - 50,500,930 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01951,671,900 - 51,898,368 (+)NCBIUU_Cfam_GSD_1.0
MBD5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl153,659,012 - 3,725,208 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1153,649,859 - 4,096,459 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2153,337,836 - 3,346,811 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MBD5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11033,401,903 - 33,907,307 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1033,743,166 - 33,904,508 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666040165,632,515 - 166,137,209 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Mbd5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248661,105,616 - 1,162,288 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248661,003,279 - 1,162,545 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_013366040 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021719582 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021719620 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021719657 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021735981 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021736008 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021736031 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_040294279 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_040294280 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_040294281 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_040294282 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_040294284 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005737952 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005737953 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005737954 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAESOR010000362 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSSTOT00000019566   ⟹   ENSSTOP00000018153
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_00493646928,757,022 - 28,802,720 (-)Ensembl
Ensembl Acc Id: ENSSTOT00000031627   ⟹   ENSSTOP00000023993
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_00493646928,744,814 - 28,802,776 (-)Ensembl
RefSeq Acc Id: XM_013366040   ⟹   XP_013221494
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303112,728,037 - 112,872,593 (+)NCBI
SpeTri2.0NW_00493646928,748,499 - 28,889,679 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021719582   ⟹   XP_021575257
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303112,728,037 - 112,872,593 (+)NCBI
SpeTri2.0NW_00493646928,748,499 - 28,889,679 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021719620   ⟹   XP_021575295
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303112,728,037 - 112,872,593 (+)NCBI
SpeTri2.0NW_00493646928,748,499 - 28,889,679 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021719657   ⟹   XP_021575332
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303112,728,037 - 112,872,593 (+)NCBI
SpeTri2.0NW_00493646928,748,499 - 28,889,679 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021735981   ⟹   XP_021591656
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303112,728,037 - 112,872,593 (+)NCBI
SpeTri2.0NW_00493646928,748,499 - 28,889,679 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021736008   ⟹   XP_021591683
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303112,728,037 - 112,872,593 (+)NCBI
SpeTri2.0NW_00493646928,748,499 - 28,889,679 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021736031   ⟹   XP_021591706
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303112,728,037 - 112,872,593 (+)NCBI
SpeTri2.0NW_00493646928,748,499 - 28,889,679 (-)NCBI
Sequence:
RefSeq Acc Id: XM_040294279   ⟹   XP_040150213
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303112,728,037 - 112,872,593 (+)NCBI
RefSeq Acc Id: XM_040294280   ⟹   XP_040150214
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303112,728,037 - 112,872,593 (+)NCBI
RefSeq Acc Id: XM_040294281   ⟹   XP_040150215
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303112,728,037 - 112,872,593 (+)NCBI
RefSeq Acc Id: XM_040294282   ⟹   XP_040150216
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303112,728,037 - 112,872,593 (+)NCBI
RefSeq Acc Id: XM_040294284   ⟹   XP_040150218
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303112,486,058 - 112,872,593 (+)NCBI
RefSeq Acc Id: XR_005737952
Type: NON-CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303112,728,037 - 112,868,575 (+)NCBI
RefSeq Acc Id: XR_005737953
Type: NON-CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303112,728,037 - 112,868,574 (+)NCBI
RefSeq Acc Id: XR_005737954
Type: NON-CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303112,728,037 - 112,868,573 (+)NCBI
RefSeq Acc Id: XP_013221494   ⟸   XM_013366040
- Peptide Label: isoform X6
- UniProtKB: A0A287CRU2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021575257   ⟸   XM_021719582
- Peptide Label: isoform X7
- UniProtKB: A0A287CRU2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021575332   ⟸   XM_021719657
- Peptide Label: isoform X9
- UniProtKB: A0A287CRU2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021575295   ⟸   XM_021719620
- Peptide Label: isoform X8
- UniProtKB: A0A287CRU2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021591683   ⟸   XM_021736008
- Peptide Label: isoform X3
- UniProtKB: A0A287CRU2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021591706   ⟸   XM_021736031
- Peptide Label: isoform X5
- UniProtKB: A0A287CRU2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021591656   ⟸   XM_021735981
- Peptide Label: isoform X1
- UniProtKB: A0A287CRU2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_040150218   ⟸   XM_040294284
- Peptide Label: isoform X9
- UniProtKB: A0A287CRU2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_040150213   ⟸   XM_040294279
- Peptide Label: isoform X1
- UniProtKB: A0A287CRU2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_040150215   ⟸   XM_040294281
- Peptide Label: isoform X2
- UniProtKB: A0A287CRU2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_040150216   ⟸   XM_040294282
- Peptide Label: isoform X4
- UniProtKB: A0A287CRU2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_040150214   ⟸   XM_040294280
- Peptide Label: isoform X1
- UniProtKB: A0A287CRU2 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSSTOP00000023993   ⟸   ENSSTOT00000031627
Ensembl Acc Id: ENSSTOP00000018153   ⟸   ENSSTOT00000019566
Protein Domains
MBD   PWWP


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000024028 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000019566.2 UniProtKB/TrEMBL
  ENSSTOT00000031627.1 UniProtKB/TrEMBL
Gene3D-CATH 2.30.30.140 UniProtKB/TrEMBL
InterPro DNA-bd_dom_sf UniProtKB/TrEMBL
  Methyl_CpG_DNA-bd UniProtKB/TrEMBL
  PWWP_dom UniProtKB/TrEMBL
NCBI Gene Mbd5 ENTREZGENE
PANTHER METHYL-CPG-BINDING DOMAIN PROTEIN 5 UniProtKB/TrEMBL
  PTHR16112 UniProtKB/TrEMBL
PROSITE MBD UniProtKB/TrEMBL
  PWWP UniProtKB/TrEMBL
SMART MBD UniProtKB/TrEMBL
Superfamily-SCOP SSF54171 UniProtKB/TrEMBL
  Tudor/PWWP/MBT UniProtKB/TrEMBL
UniProt A0A287CRU2 ENTREZGENE, UniProtKB/TrEMBL
  I3N1A7_ICTTR UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-25 Mbd5  methyl-CpG binding domain protein 5  LOC110596916  uncharacterized LOC110596916  Data merged from RGD:13088849 737654 PROVISIONAL