Mindy4b-ps (MINDY lysine 48 deubiquitinase 4B, pseudogene) - Rat Genome Database

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Gene: Mindy4b-ps (MINDY lysine 48 deubiquitinase 4B, pseudogene) Mus musculus
Analyze
Symbol: Mindy4b-ps
Name: MINDY lysine 48 deubiquitinase 4B, pseudogene
RGD ID: 2299609
MGI Page MGI
Description: Predicted to enable K48-linked deubiquitinase activity. Orthologous to human MINDY4B (MINDY family member 4B).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: 5330432B20Rik; BB026216; Fam188b; Fam188b2; Fam188b2-ps; family with sequence similarity 188, member B2; family with sequence similarity 188, member B2, pseudogene; inactive ubiquitin carboxyl-terminal hydrolase MINDY-4B; MINDY4B; RIKEN cDNA 5330432B20 gene
RGD Orthologs
Human
Rat
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39358,697,538 - 58,727,655 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl358,695,828 - 58,729,732 (-)EnsemblGRCm39 Ensembl
GRCm38358,790,117 - 58,822,225 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl358,788,407 - 58,822,311 (-)EnsemblGRCm38mm10GRCm38
MGSCv37358,592,325 - 58,595,941 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36358,594,042 - 58,624,137 (-)NCBIMGSCv36mm8
Celera358,482,342 - 58,485,961 (-)NCBICelera
Cytogenetic Map3DNCBI
cM Map328.75NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:16141072   PMID:16141073   PMID:21267068   PMID:21873635  


Genomics

Comparative Map Data
Mindy4b-ps
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39358,697,538 - 58,727,655 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl358,695,828 - 58,729,732 (-)EnsemblGRCm39 Ensembl
GRCm38358,790,117 - 58,822,225 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl358,788,407 - 58,822,311 (-)EnsemblGRCm38mm10GRCm38
MGSCv37358,592,325 - 58,595,941 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36358,594,042 - 58,624,137 (-)NCBIMGSCv36mm8
Celera358,482,342 - 58,485,961 (-)NCBICelera
Cytogenetic Map3DNCBI
cM Map328.75NCBI
MINDY4B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383150,870,376 - 150,905,439 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3150,870,376 - 150,905,439 (-)EnsemblGRCh38hg38GRCh38
GRCh373150,588,163 - 150,623,226 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363152,071,522 - 152,105,916 (-)NCBINCBI36Build 36hg18NCBI36
Celera3149,001,782 - 149,033,992 (-)NCBICelera
Cytogenetic Map3q25.1NCBI
HuRef3147,962,147 - 147,994,318 (-)NCBIHuRef
CHM1_13150,552,171 - 150,572,669 (-)NCBICHM1_1
T2T-CHM13v2.03153,621,470 - 153,656,526 (-)NCBIT2T-CHM13v2.0
Mindy4b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82145,175,510 - 145,208,165 (-)NCBIGRCr8
mRatBN7.22143,026,685 - 143,061,966 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2143,027,285 - 143,058,144 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.02149,004,738 - 149,025,388 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2148,993,072 - 149,014,838 (-)NCBIRnor6.0rn6Rnor6.0
Celera2137,467,657 - 137,488,014 (-)NCBICelera
Cytogenetic Map2q26NCBI
MINDY4B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22148,769,814 - 148,804,200 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13148,774,544 - 148,808,930 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03147,898,609 - 147,945,757 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13155,471,591 - 155,491,583 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3155,471,591 - 155,505,966 (-)Ensemblpanpan1.1panPan2
MINDY4B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12345,455,973 - 45,481,556 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2345,456,036 - 45,491,057 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2345,322,828 - 45,357,592 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02346,084,496 - 46,119,465 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2346,084,514 - 46,119,471 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12345,673,747 - 45,708,821 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02345,726,308 - 45,761,390 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02346,002,728 - 46,037,458 (-)NCBIUU_Cfam_GSD_1.0
Mindy4b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560290,535,159 - 90,564,704 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049367581,203,803 - 1,224,340 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MINDY4B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11539,786,459 - 39,825,111 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604112,607,527 - 12,644,022 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Mindy4b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473028,311,989 - 28,328,865 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Mindy4b-ps
1016 total Variants

QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
26884436Zlq3_mzygomatic length QTL 3, 10 week (mouse)33265060142405761Mouse
1558925Hivan1_mHIV-associated nephropathy 1 (mouse)Not determined3758617468716946Mouse
4142399Aec1_mautoimmune exocrinopathy 1 (mouse)Not determined7586174102690034Mouse
4141116Lgaq4_mlate growth adjusted QTL 4 (mouse)Not determined1024922183184946Mouse
4141255W10q3_mweight 10 weeks QTL 3 (mouse)Not determined1024922183184946Mouse
4141563Lgq3_mlate growth QTL 3 (mouse)Not determined1024922183184946Mouse
39128206Lwq18_mliver weight QTL 18 (mouse)31024922183184946Mouse
1357584Splq6_mspleen weight QTL 6 (mouse)Not determined31024922183184946Mouse
1357440Hrtpq1_mheart weight percentage QTL 1 (mouse)Not determined31024922183184946Mouse
26884427Cvht4_mcranial vault height 4, 10 week (mouse)316054164109707316Mouse
13207570Tcq12_mtotal cholesterol QTL 12 (mouse)316504164130163649Mouse
26884422Cvht7_mcranial vault height 7, 16 week (mouse)328954149118893649Mouse
1302056Orgwq4_morgan weight QTL 4 (mouse)Not determined330067588147304689Mouse
1300961Bh4p_mbar holding four paws (mouse)Not determined33183785465837997Mouse
10412073Ssen2_msuseptibility to Sendai virus 2 (mouse)Not determined33353546567535615Mouse
9587784Afw13_mabdominal fat weight QTL 13 (mouse)Not determined33375204567752228Mouse
10043882Bwtq13_mbody weight QTL 13 (mouse)Not determined33375204567752228Mouse
15039332Nmrs6_mNAFLD-associated magnetic resonance shift 6 (mouse)33417074168170741Mouse
15039336Nmrs2_mNAFLD-associated magnetic resonance shift 2 (mouse)33457610368576103Mouse
18337272Bmd46_mbone mineral density 46, males (mouse)33540742169407421Mouse
14746977Manh53_mmandible shape 53 (mouse)33592528069925280Mouse
1301705Sles3_msystemic lupus erythmatosus suppressor 3 (mouse)Not determined337174862143353183Mouse
1300587Aod2_mautoimmune ovarian dysgenesis 2 (mouse)Not determined33717974268716946Mouse
11041901Lmr11b_mleishmaniasis resistance 11b (mouse)33970410273704231Mouse
11039513Ltpr3a_mLeishmania tropica response 3a (mouse)33970410273704231Mouse
1301585Cd4ts1_mCD4 T cell subset 1 (mouse)Not determined33970410273704231Mouse
10755516Amzn1_manatomical modifier of Zfp423 1 (mouse)33970410273704231Mouse
13208566Bmiq5_mbody mass index QTL 5 (mouse)340954435115793649Mouse
26884389Skwq10_mskull length QTL 10, 16 week (mouse)34395443565307421Mouse
26884380Skwq1_mskull length QTL 1, 5 week (mouse)343954435101607316Mouse
4141079Ath23_matherosclerosis 23 (mouse)Not determined4935758183357581Mouse
1300895Hdl5_mHDL level 5 (mouse)Not determined34949500583495118Mouse
1301824Susp_msuppressor of superoxide production (mouse)Not determined34949500583495118Mouse
26884378Skwq6_mskull length QTL 6, 10 week (mouse)351907421102307316Mouse
26884382Bzwq1_mbi-zygomatic width QTL 1, 5 week (mouse)352207421137205761Mouse
1357585Manln3_mmandible length 3 (mouse)Not determined35262550986625745Mouse
1301917Tshp4_mtooth shape 4 (mouse)Not determined35262550986625745Mouse
1300593Skull4_mskull morphology 4 (mouse)Not determined35262550986625745Mouse
13464139Nhdlq17_mnon-HDL QTL 17 (mouse)35292318386923183Mouse
11039519Ltpr3_mLeishmania tropica response 3 (mouse)356704102100464137Mouse

Markers in Region
BB026216  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38358,788,550 - 58,788,673UniSTSGRCm38
MGSCv37358,592,472 - 58,592,595UniSTSGRCm37
Celera358,482,490 - 58,482,613UniSTS
Cytogenetic Map3DUniSTS
Whitehead/MRC_RH3528.97UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000191174
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl358,695,828 - 58,699,440 (-)Ensembl
GRCm38.p6 Ensembl358,788,407 - 58,792,019 (-)Ensembl
RefSeq Acc Id: ENSMUST00000191233   ⟹   ENSMUSP00000151654
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl358,697,541 - 58,729,732 (-)Ensembl
GRCm38.p6 Ensembl358,790,120 - 58,822,311 (-)Ensembl
RefSeq Acc Id: ENSMUST00000212169   ⟹   ENSMUSP00000151582
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl358,697,541 - 58,719,364 (-)Ensembl
GRCm38.p6 Ensembl358,790,120 - 58,811,943 (-)Ensembl
RefSeq Acc Id: XM_055019671   ⟹   XP_054875646
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39358,697,538 - 58,727,655 (-)NCBI
Protein Sequences
Protein RefSeqs XP_054875646 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000151582.2
  ENSMUSP00000151654
  ENSMUSP00000151654.3
Reference Protein Sequences
RefSeq Acc Id: ENSMUSP00000151654   ⟸   ENSMUST00000191233
RefSeq Acc Id: ENSMUSP00000151582   ⟸   ENSMUST00000212169
RefSeq Acc Id: XP_054875646   ⟸   XM_055019671
- UniProtKB: A0A1W2P7H6 (UniProtKB/TrEMBL)
Protein Domains
Deubiquitinating enzyme MINDY-3/4 conserved

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A1W2P7H6-F1-model_v2 AlphaFold A0A1W2P7H6 1-457 view protein structure


Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2140018 AgrOrtholog
Ensembl Genes ENSMUSG00000101860 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000191233 ENTREZGENE
  ENSMUST00000191233.4 UniProtKB/TrEMBL
  ENSMUST00000212169.2 UniProtKB/TrEMBL
InterPro DUF4205 UniProtKB/TrEMBL
  MINY3/4 UniProtKB/TrEMBL
MGD MGI:2140018 ENTREZGENE
NCBI Gene 100040293 ENTREZGENE
PANTHER INACTIVE UBIQUITIN CARBOXYL-TERMINAL HYDROLASE MINDY-4B UniProtKB/TrEMBL
  PTHR12473 UniProtKB/TrEMBL
Pfam DUF4205 UniProtKB/TrEMBL
PhenoGen Mindy4b-ps PhenoGen
SMART DUF4205 UniProtKB/TrEMBL
UniProt A0A1W2P795_MOUSE UniProtKB/TrEMBL
  A0A1W2P7H6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-06-06 Mindy4b-ps  MINDY lysine 48 deubiquitinase 4B, pseudogene  Fam188b2-ps  family with sequence similarity 188, member B2, pseudogene  Symbol and/or name change 5135510 APPROVED
2016-04-12 Fam188b2-ps  family with sequence similarity 188, member B2, pseudogene  Fam188b2  family with sequence similarity 188, member B2  Symbol and/or name change 5135510 APPROVED
2016-04-04 Fam188b2  family with sequence similarity 188, member B2  5330432B20Rik  RIKEN cDNA 5330432B20 gene  Data merged from RGD:1615002 737654 PROVISIONAL