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Gene: Mindy4 (MINDY lysine 48 deubiquitinase 4) Chinchilla lanigera

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Symbol:

Mindy4

Name:

MINDY lysine 48 deubiquitinase 4

RGD ID:

8774724

Description:

ASSOCIATED WITH Charcot-Marie-Tooth disease type 2 (ortholog); Ehlers-Danlos syndrome kyphoscoliotic type 2 (ortholog); pleomorphic xanthoastrocytoma (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

Fam188b; family with sequence similarity 188 member B; family with sequence similarity 188, member B

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

ChiLan1.0 - Chinchilla ChiLan1.0 Assembly

Position:

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955410	31,943,915 - 32,046,747 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955410	31,944,140 - 32,047,112 (+)	NCBI	ChiLan1.0	ChiLan1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Charcot-Marie-Tooth disease type 2 (ISO)

Ehlers-Danlos syndrome kyphoscoliotic type 2 (ISO)

pleomorphic xanthoastrocytoma (ISO)

References

Additional References at PubMed

PMID:30032202

Genomics

Comparative Map Data

Mindy4
(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_004955410	31,943,915 - 32,046,747 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955410	31,944,140 - 32,047,112 (+)	NCBI	ChiLan1.0	ChiLan1.0

MINDY4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	7	30,771,417 - 30,892,387 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	7	30,771,417 - 30,892,387 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	7	30,811,033 - 30,932,002 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	7	30,777,558 - 30,898,527 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	7	30,800,258 - 30,921,208 (+)	NCBI		Celera
Cytogenetic Map	7	p14.3	NCBI
HuRef	7	30,693,266 - 30,814,224 (+)	NCBI		HuRef
CHM1_1	7	30,811,313 - 30,931,937 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	7	30,909,066 - 31,030,035 (+)	NCBI		T2T-CHM13v2.0
CRA_TCAGchr7v2	7	30,860,569 - 30,981,508 (+)	NCBI

Mindy4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	6	55,180,337 - 55,297,208 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	6	55,180,368 - 55,297,207 (+)	Ensembl		GRCm39 Ensembl
GRCm38	6	55,203,350 - 55,320,223 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	6	55,203,383 - 55,320,222 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	6	55,153,377 - 55,270,216 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	6	55,132,961 - 55,208,203 (+)	NCBI		MGSCv36	mm8
Celera	6	55,739,391 - 55,854,058 (+)	NCBI		Celera
Cytogenetic Map	6	B3	NCBI
cM Map	6	27.38	NCBI

Mindy4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	4	85,689,049 - 85,797,553 (+)	NCBI		GRCr8
mRatBN7.2	4	84,358,660 - 84,469,189 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	84,358,902 - 84,463,395 (+)	Ensembl		mRatBN7.2 Ensembl
Rnor_6.0	4	85,427,741 - 85,536,264 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	85,427,555 - 85,532,238 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	4	150,079,958 - 150,188,230 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	83,974,751 - 84,079,264 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	4	79,225,891 - 79,334,406 (+)	NCBI		Celera
Cytogenetic Map	4	q24	NCBI

MINDY4
(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-v2	6	35,582,264 - 35,703,509 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	7	83,907,207 - 84,028,237 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	7	31,384,527 - 31,505,551 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	7	31,504,351 - 31,625,097 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	7	31,504,351 - 31,625,097 (+)	Ensembl	panpan1.1		panPan2

MINDY4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	14	43,469,740 - 43,573,999 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	14	43,469,784 - 43,573,999 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	14	42,902,094 - 43,006,260 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	14	43,410,405 - 43,514,614 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	14	43,410,440 - 43,514,478 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	14	43,526,190 - 43,630,289 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	14	43,202,334 - 43,306,793 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	14	43,563,818 - 43,668,049 (+)	NCBI		UU_Cfam_GSD_1.0

Mindy4
(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_024405118	87,801,612 - 87,915,001 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936478	7,013,274 - 7,126,749 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936478	7,013,419 - 7,126,734 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

MINDY4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	18	42,096,353 - 42,200,694 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	18	42,096,351 - 42,202,511 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

MINDY4
(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	21	27,473,251 - 27,621,772 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	21	27,489,814 - 27,621,647 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666042	77,082,635 - 77,214,575 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Mindy4
(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_004624783	30,277 - 146,184 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624783	30,259 - 146,524 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005377507	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01011334	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AGCD01011335	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBDF01048833	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSCLAT00000020458 ⟹ ENSCLAP00000020262

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955410	31,943,915 - 32,046,747 (+)	Ensembl

RefSeq Acc Id:

XM_005377507 ⟹ XP_005377564

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955410	31,944,140 - 32,047,112 (+)	NCBI

Sequence:

show sequence

CACTGTGAGTGTGGTCCTCTCGAACAAGAAGGCAGGCACGCTTCCCACCTCATGTTTAGGGAAA
TGGAGACTCAAACTACATCAGGAACTTGTCCTGTGGCCAGCAGATTTCCGTAGGGATTTGTCCT
AGGGCTAGTGTCAGCCCCGAGCCCAGAGCTGGGGTCTGACTCCTAGCTGCCCTTGACGGCTGCC
TTCCGCACTGAGAAGCAGTGTGTGAAGGATGCTCCTCCCCTTCCCTCTCTCCCTCCCATTCCGC
CGGCTCCCAGGGAAGGGGAGGAGCTCTCACTGGCTCAGATGCCACCGTCGCCACGGCAACACGG
CCATACTGGGCCCAACGGACTGCGGGGCCTGGGGCTGTGACCCTGGTGGCCTCGTGGGCAGAGC
CGGCAGCATGGACAGCCTATTTGTGGAGGAGGTGGCCGCCTCCCTGGTCAGGGAGTTCCTCAGC
AGAAAGGGCCTAAAGAAGACATGTGTGACCATGGACCAGGAACGCCCGCGCTCTGACCTCAGCA
TAAACAGCAGAAATGACCTCCGAAAGGTTTTGCATCTCGAGCTTCTCTACAGGGAGAACAAGGC
AAAGGAAAATCCTCTAAAAACAAGCCTTGAACTCATCACTAGATACTTTTTGGATTACTCTGGA
GACGTGGATAAAAATTTAAAACAAGAAACTCCAATCCCTGCACTCTCAGTTCCAAAGAAAAATA
ATAAATTGCCGATGAGATGCTCAGAGACCACGCTGGTGAATATATATGACCTTTCAGATGAAGA
CGCAGGATGGAGAACGTCTTTGGCAGAAACAAGCAAGGCCAGACGAGACAGTCTCGATGGGGAT
ATACCTGGTAATTTGTCATGCAAAATGCCCCCACGCAAGAGTAATCCTGGGAACATGGTACCAG
ATGAAAGCGCCCCTTTGGCATCTGCATGGGAGAAGGTGGACAAGCTTCACTTGCTGGATCCATG
CACTGATGTGAAGAGGGCAGGAGAGAAGACCAGGCCCAAGTCTGGCCTGATTTTCCGAGGCATG
ATGGCTGGACCCATGGCCAGCTCCTCCCAGGGTTCTTTCCGCAAACGCTCTCTAAGACGGTCTC
TGGCCTCAAGCAGCAAGACTCAACCCCAGGAGGAGGAGAGCCCCATGGTGCCTGACCTCTCAGG
TGGCACCCCAGCCCACCTAGCCCCACAGGAGATCCCTGCTTCCAACAATGGCTCCATCTCCAGA
AGCCCCCTGGGCCAGCTTAGTGAACCATCCAAGGAAAAGCAGAAAACCACCCCCAGCAGCCCTT
CTCACCTGCCCAGCAAAGGACTGACCCCACGTGACAGAGTGCTGCCTAGAAGTCTGTCAGAGAA
TGAGCCAGCAGTAGATGGCCACACAGAGGTGGAGAGGACAACCTCAAAGTTGTACTTGCCCAGT
GGGAACCCCAGGGTGACCCAGGAGAGGCTGGAAAAAGCTGTCAACCGTCAGGGCAGCCAGCCCT
CACCTCTCAGGAAGAGTCAGTTACCAGCGTCCAACAAGGTGGATGATGAGCTGGATGCCCTGCA
GCTTGAGGACGTGGAGGATGAGTTGATAAGGGAAGATGTCATCCTGGCTCCAGCCCCGTCAATG
CTCAAGATGCAGATAGTGTCAAAGCCCATTGACCTCTCAGAAGCCAAGGAAATCAAGACCCTGC
TGTTTGGTTCTACATTTTGCTGCTTCAATGAGGAATGGAAGCTTCAAAGCTTTTCCTTTAGTGA
CACAGCCTCCTTACGATATGGCATCGTGCAGAACAAGGGTGGCCCCTGTGGGGTGCTGGCGGCC
GTCCAAGGCTGTGTGCTGCAGAAGCTCCTGTTCGGAGGCGAGAGTGGAGCCGACTGCTCTGTGC
AGCTGCAGCCTTCAGATGCCCTTCGCACCCGCTGCCTGGCCCTGGCCATCGCAGACATCCTCTG
GCGGGCTGGGAGCCGGAAGCAAGCCGTGGTCACCCTGGCTTCTGGAACACAGCAGTTCAGTCCA
ACGGGGAAATACAAAGCAGATGGAGTCTTAGAAACACTCACGCTCCACAGTGTGTCCTGCTATG
AGGAACTGGTGACTTTTCTCCAACACACTGTGCATCAGTTTGAAATGGGCCCCTACGGATGCAT
CCTGCTCACCCTGTCTGCCATCCTGTCCAGGTCCTTGGAGCTCATTCGCCAGGATTTCGATGTC
CCCACCAGTCACCTGATTGGAGCACATGGTTACTGCACACAGGAACTTGTCAATCTGCTGCTGA
CTGGGAGAGCTGTGTCTAATGTTTTCAACGATGTGGTGGAGCTGGATTCTGGGAATGGAAACAT
CACACTCCTCCGAGGCATTGCTGCCCGCAGTGACATTGGCTTCTTGTCTCTCTTTGAGCACTAC
AATGTATGCCAGGTCGGCTGCTTCCTGAAAACCCCAAGGTACCCCATCTGGGTGGTCTGCAGTG
AGAGCCACTTCAGCATCCTCTTCAGCCTGCAGTCTGAGCTCCTGTCCGACTGGAGGACCGAGCG
GCTCTTTGACCTGTACTACTATGACGGCCTGGCCAACCAGCAGGAGCAGATCCGCCTGACCATC
GACACCACGCAGACCGTCCCTGAGGATAGCAGCGAGGGCCTTGTCCCTCCTCTGGAGCTTTGCA
TCAGGACCAAGTGGAAGGGGGCTTCTGTGGACTGGAATGGCTCAGACCCGATCCTGTGACCCTG
GATGCAGCTAAGGTTAATGGCTCCACTGCTCATGCCTGGGGTGATCCCTGAACCCCAGACCTTT
GGGGCAAGTCTCTTCCAAGAAGATATCACCCCCACCCGAGCCAGCACTGCGCCAAGCTAGCAAA
GCCTCCCTGCTCCTCCCATGTAGGGCCACCAAGGCTGAGGCAGGCGCCCTGAGTGAGGCTGTAT
TGCCTCCCCGCTGACCCTGACTGCCAAGGAGAGGAAGGAGGCCACCAGTGACTCTGCTGCTTTT
GTTTGCACCCCTCCTTTGTTCCCTGCCCTCACTGAGGTCTCTCGCATGGTTGGCCAAGGAGACC
CAGGGCAATGGTTATTTCTGGTAGTCAGTTTTCTATAAAGCAAGAGTCAAACCTGCA

hide sequence

Protein Sequences


Protein RefSeqs	XP_005377564	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000020262
	ENSCLAP00000020262.1

RefSeq Acc Id:

XP_005377564 ⟸ XM_005377507

- UniProtKB:

A0A8C2YSL1 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MLLPFPLSLPFRRLPGKGRSSHWLRCHRRHGNTAILGPTDCGAWGCDPGGLVGRAGSMDSLFVE
EVAASLVREFLSRKGLKKTCVTMDQERPRSDLSINSRNDLRKVLHLELLYRENKAKENPLKTSL
ELITRYFLDYSGDVDKNLKQETPIPALSVPKKNNKLPMRCSETTLVNIYDLSDEDAGWRTSLAE
TSKARRDSLDGDIPGNLSCKMPPRKSNPGNMVPDESAPLASAWEKVDKLHLLDPCTDVKRAGEK
TRPKSGLIFRGMMAGPMASSSQGSFRKRSLRRSLASSSKTQPQEEESPMVPDLSGGTPAHLAPQ
EIPASNNGSISRSPLGQLSEPSKEKQKTTPSSPSHLPSKGLTPRDRVLPRSLSENEPAVDGHTE
VERTTSKLYLPSGNPRVTQERLEKAVNRQGSQPSPLRKSQLPASNKVDDELDALQLEDVEDELI
REDVILAPAPSMLKMQIVSKPIDLSEAKEIKTLLFGSTFCCFNEEWKLQSFSFSDTASLRYGIV
QNKGGPCGVLAAVQGCVLQKLLFGGESGADCSVQLQPSDALRTRCLALAIADILWRAGSRKQAV
VTLASGTQQFSPTGKYKADGVLETLTLHSVSCYEELVTFLQHTVHQFEMGPYGCILLTLSAILS
RSLELIRQDFDVPTSHLIGAHGYCTQELVNLLLTGRAVSNVFNDVVELDSGNGNITLLRGIAAR
SDIGFLSLFEHYNVCQVGCFLKTPRYPIWVVCSESHFSILFSLQSELLSDWRTERLFDLYYYDG
LANQQEQIRLTIDTTQTVPEDSSEGLVPPLELCIRTKWKGASVDWNGSDPIL

hide sequence

Ensembl Acc Id:

ENSCLAP00000020262 ⟸ ENSCLAT00000020458

Protein Domains

Deubiquitinating enzyme MINDY-3/4 conserved

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000013883	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000020458	ENTREZGENE
	ENSCLAT00000020458.1	UniProtKB/TrEMBL
InterPro	MINDY-3/4_CD	UniProtKB/TrEMBL
	MINY3/4	UniProtKB/TrEMBL
NCBI Gene	Fam188b	ENTREZGENE
PANTHER	PTHR12473	UniProtKB/TrEMBL
	UBIQUITIN CARBOXYL-TERMINAL HYDROLASE MINDY-4-RELATED	UniProtKB/TrEMBL
Pfam	DUF4205	UniProtKB/TrEMBL
SMART	DUF4205	UniProtKB/TrEMBL
UniProt	A0A8C2YSL1	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2017-02-07	Mindy4	MINDY lysine 48 deubiquitinase 4	Fam188b	family with sequence similarity 188 member B	Symbol and/or name change	5135510	APPROVED
2016-08-16	Fam188b	family with sequence similarity 188 member B		family with sequence similarity 188, member B	Symbol and/or name change	5135510	APPROVED

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)

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