Nkx6-2 (NK6 homeobox 2) - Rat Genome Database

Name: Nkx6-2
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Nkx6-2 (NK6 homeobox 2) Chinchilla lanigera

Analyze

Symbol:

Nkx6-2

Name:

NK6 homeobox 2

RGD ID:

8770049

Description:

ENCODES a protein that exhibits DNA binding (ortholog); DNA-binding transcription factor activity (ortholog); DNA-binding transcription repressor activity, RNA polymerase II-specific (ortholog); INVOLVED IN cell fate commitment (ortholog); central nervous system myelination (ortholog); endocrine pancreas development (ortholog); ASSOCIATED WITH distal 10q deletion syndrome (ortholog); genetic disease (ortholog); spastic ataxia 8 (ortholog); FOUND IN nucleus (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

homeobox protein Nkx-6.2

RGD Orthologs

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	NKX6-2 (NK6 homeobox 2)	NCBI	Ortholog
Mus musculus (house mouse):	Nkx6-2 (NK6 homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Nkx6-2 (NK6 homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	NKX6-2 (NK6 homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	NKX6-2 (NK6 homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Nkx6-2 (NK6 homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	NKX6-2 (NK6 homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	NKX6-2 (NK6 homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Nkx6-2 (NK6 homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

ChiLan1.0 - Chinchilla ChiLan1.0 Assembly

NCBI Annotation Information:

Annotation category: partial on reference assembly

Position:

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955477	10,386,033 - 10,387,423 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955477	10,386,033 - 10,387,423 (-)	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

distal 10q deletion syndrome (ISO)

genetic disease (ISO)

spastic ataxia 8 (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cell fate commitment (ISO)

central nervous system myelination (ISO)

endocrine pancreas development (ISO)

negative regulation of cell fate commitment (ISO)

negative regulation of DNA-templated transcription (ISO)

negative regulation of oligodendrocyte differentiation (ISO)

negative regulation of transcription by RNA polymerase II (ISO)

neuromuscular process controlling balance (ISO)

neuron fate commitment (ISO)

oligodendrocyte differentiation (ISO)

pancreatic A cell differentiation (ISO)

positive regulation of cell fate commitment (ISO)

positive regulation of oligodendrocyte differentiation (ISO)

regulation of myelination (ISO)

regulation of transcription by RNA polymerase II (ISO)

Cellular Component

nucleus (ISO)

Molecular Function

DNA binding (ISO)

DNA-binding transcription factor activity (ISO)

DNA-binding transcription repressor activity, RNA polymerase II-specific (ISO)

RNA polymerase II cis-regulatory region sequence-specific DNA binding (ISO)

sequence-specific DNA binding (ISO)

sequence-specific double-stranded DNA binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Transitive Annotation Pipeline	Automated assignment of GO, PW and RDO ISO annotations across species

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Nkx6-2
(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_004955477	10,386,033 - 10,387,423 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955477	10,386,033 - 10,387,423 (-)	NCBI	ChiLan1.0	ChiLan1.0

NKX6-2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	10	132,783,181 - 132,786,147 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	10	132,783,179 - 132,786,147 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	10	134,596,685 - 134,599,651 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	10	134,448,310 - 134,449,527 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	10	134,448,409 - 134,449,442	NCBI
Celera	10	128,918,129 - 128,919,346 (+)	NCBI		Celera
Cytogenetic Map	10	q26.3	NCBI
HuRef	10	128,149,796 - 128,168,438 (-)	NCBI		HuRef
CHM1_1	10	134,879,801 - 134,881,014 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	10	133,732,363 - 133,735,334 (-)	NCBI		T2T-CHM13v2.0

Nkx6-2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	7	139,159,292 - 139,162,726 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	7	139,159,292 - 139,162,713 (-)	Ensembl		GRCm39 Ensembl
GRCm38	7	139,579,376 - 139,582,797 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	7	139,579,376 - 139,582,797 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	7	146,765,275 - 146,768,696 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	7	139,430,619 - 139,434,113 (-)	NCBI		MGSCv36	mm8
Celera	7	139,372,632 - 139,376,053 (-)	NCBI		Celera
Cytogenetic Map	7	F4	NCBI
cM Map	7	84.57	NCBI

Nkx6-2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	1	203,811,582 - 203,813,122 (-)	NCBI		GRCr8
mRatBN7.2	1	194,380,149 - 194,383,533 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	194,381,975 - 194,383,515 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	202,741,814 - 202,743,354 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	209,875,137 - 209,876,677 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	202,548,893 - 202,550,433 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	211,922,389 - 211,923,929 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	211,922,389 - 211,923,929 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	218,843,804 - 218,847,968 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	199,397,361 - 199,398,901 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	1	199,547,331 - 199,548,851 (-)	NCBI
Celera	1	192,060,331 - 192,061,871 (-)	NCBI		Celera
Cytogenetic Map	1	q41	NCBI

NKX6-2
(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	8	144,791,002 - 144,792,310 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	10	144,796,359 - 144,797,667 (-)	NCBI		NHGRI_mPanPan1
PanPan1.1	10	133,682,456 - 133,683,445 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	10	133,682,456 - 133,683,445 (-)	Ensembl	panpan1.1		panPan2

NKX6-2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	28	40,568,948 - 40,570,240 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	28	40,569,093 - 40,570,793 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	28	40,630,410 - 40,634,025 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	28	41,210,086 - 41,213,421 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	28	41,212,277 - 41,213,389 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	28	40,693,462 - 40,696,832 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	28	40,683,359 - 40,686,533 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	28	41,085,902 - 41,089,237 (-)	NCBI		UU_Cfam_GSD_1.0

Nkx6-2
(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_024407213	6,535,911 - 6,537,217 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936486	19,024,263 - 19,025,390 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936486	19,024,106 - 19,025,387 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

NKX6-2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	14	140,897,874 - 140,899,155 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	14	140,895,622 - 140,899,114 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	152,868,746 - 152,870,821 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

NKX6-2
(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	9	125,374,441 - 125,377,565 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	9	125,376,268 - 125,377,482 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666048	86,957,160 - 86,960,190 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Nkx6-2
(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_004624737	14,045,640 - 14,048,786 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624737	14,045,402 - 14,047,005 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005402050	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01055694	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBBH01190915	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBDJ01170537	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSCLAT00000004117 ⟹ ENSCLAP00000004036

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955477	10,386,033 - 10,387,423 (-)	Ensembl

RefSeq Acc Id:

XM_005402050 ⟹ XP_005402107

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955477	10,386,033 - 10,387,423 (-)	NCBI

Sequence:

show sequence

GGTAGTCTGTGCCAGTCGAAGCTTCGTGTTCTCTCAGGCTGCCACCCAGACCGCACCTGAGCCA
CCCGCCAGTCCGCCCCAGCCGTCAGTCCTGCTCGCCGCTCCCCCGCTGTAGCCGGCGTCCGCCT
GCGCCGCGCGCAAACTTCCCCGGCCGGCGGGCGCGGGCTGCCGCGGCTGGGCCCGGATGGGCGC
CCTGGCCGGCGGCGGCGGCGCCCATGGACGCTAACCGCCCGGGCGCGTTCGTACTTAGCAGCGC
ACCACTGGCTGCGCTGCACAACATGGCCGAGATGAAGACCTCGCTGTTCCCCTATGCGCTGCAG
GGACCTGCCGGCTTCAAAGCGCCCACGTTGGGCGGCCTAGGAGCGCAGTTGCCTCTTGGCACCC
CGCACGGTATCAGCGACATTCTGGGGAGGCCAGTGGGCACGGCGGGCGGTGGCCTCCTGGGGGG
CCTGCCCCGCCTCAACGGGCTAGCCTCGTCGGCCGGCGTCTACTTCGGACCTGCAGCCGCCGTG
GCGCGTGGCTACCCCAAGCCGCTGGCCGAGTTGCCTGGGCGCCCGCCTATCTTCTGGCCCGGCG
TGGTGCAGGGCTCGCCTTGGAGGGACCCGCGCCTGGCCGGCCCGGCCCAAGGCACTGGGATCCT
GGACAAGGATGGCAAGAAGAAGCACTCGCGGCCGACTTTCTCGGGCCAGCAGATCTTCGCACTG
GAGAAGACCTTTGAGCAGACCAAGTACCTGGCGGGCCCGGAGCGCGCACGACTCGCCTACTCTC
TGGGCATGACTGAGAGCCAGGTGAAGGTGTGGTTCCAGAACCGGAGAACCAAATGGCGGAAGAG
GCACGCGGCAGAAATGGCATCGGCCAAGAAGAAGCAAGATTCAGATGCGGAGAAGCTGAAGGTG
GGCGGCTCCGACGCAGAGGACGATGATGAGTACAACCGGCCCCTGGACCCCAACTCTGACGACG
AGAAGATCACGCGGCTGCTCAAGAAGCACAAACCCTCGAACTTGGCGCTGGTCAGCCCATGCGG
CGGTGGCGCGGGGGACGCCTTGTGAGGCCTCGTCCAGGCCATAGAACCAGGGTACCGGGCGCGG
CCGGAGCCCCGACGTCAGCTGCCGCGCCGCAATGTGTATATATATTTTTTACAGAATAAGTTAT
AAAGCGGCTCGGCTCCGGTGCGACGTGCGGGGGTCCGGCGGCATCCCTTCCCGTAGGCGTGGGG
TGGGCGGATCACTTTGTATAATCAATAAATTATTTAACACGT

hide sequence

Protein Sequences


Protein RefSeqs	XP_005402107	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000004036
	ENSCLAP00000004036.1

RefSeq Acc Id:

XP_005402107 ⟸ XM_005402050

- UniProtKB:

A0A8C2UVS6 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MDANRPGAFVLSSAPLAALHNMAEMKTSLFPYALQGPAGFKAPTLGGLGAQLPLGTPHGISDIL
GRPVGTAGGGLLGGLPRLNGLASSAGVYFGPAAAVARGYPKPLAELPGRPPIFWPGVVQGSPWR
DPRLAGPAQGTGILDKDGKKKHSRPTFSGQQIFALEKTFEQTKYLAGPERARLAYSLGMTESQV
KVWFQNRRTKWRKRHAAEMASAKKKQDSDAEKLKVGGSDAEDDDEYNRPLDPNSDDEKITRLLK
KHKPSNLALVSPCGGGAGDAL

hide sequence

RefSeq Acc Id:

ENSCLAP00000004036 ⟸ ENSCLAT00000004117

Protein Domains

Homeobox

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000002882	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000004117	ENTREZGENE
	ENSCLAT00000004117.1	UniProtKB/TrEMBL
Gene3D-CATH	Homeodomain-like	UniProtKB/TrEMBL
InterPro	Homeobox-like_sf	UniProtKB/TrEMBL
	Homeobox_CS	UniProtKB/TrEMBL
	Homeobox_dom	UniProtKB/TrEMBL
	Homeobox_metazoa	UniProtKB/TrEMBL
	HTH_motif	UniProtKB/TrEMBL
NCBI Gene	Nkx6-2	ENTREZGENE
PANTHER	HOMEOBOX PROTEIN NKX	UniProtKB/TrEMBL
	HOMEOBOX PROTEIN NKX-6.2	UniProtKB/TrEMBL
Pfam	Homeodomain	UniProtKB/TrEMBL
PRINTS	HOMEOBOX	UniProtKB/TrEMBL
	HTHREPRESSR	UniProtKB/TrEMBL
PROSITE	HOMEOBOX_1	UniProtKB/TrEMBL
	HOMEOBOX_2	UniProtKB/TrEMBL
SMART	HOX	UniProtKB/TrEMBL
Superfamily-SCOP	SSF46689	UniProtKB/TrEMBL
UniProt	A0A8C2UVS6	ENTREZGENE, UniProtKB/TrEMBL

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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