NKX1-1 (NK1 homeobox 1) - Rat Genome Database

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Gene: NKX1-1 (NK1 homeobox 1) Canis lupus familiaris
Analyze
Symbol: NKX1-1
Name: NK1 homeobox 1
RGD ID: 12288232
Description: ENCODES a protein that exhibits DNA binding (inferred); DNA-binding transcription factor activity, RNA polymerase II-specific (inferred); RNA polymerase II cis-regulatory region sequence-specific DNA binding (inferred); INVOLVED IN lipid metabolic process (ortholog); nervous system process (ortholog); regulation of generation of precursor metabolites and energy (ortholog); ASSOCIATED WITH cherubism (ortholog); FOUND IN nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: NK1 transcription factor-related protein 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1362,634,654 - 62,638,111 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl362,634,783 - 62,638,111 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha365,150,929 - 65,154,386 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0363,109,511 - 63,112,971 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl363,109,640 - 63,112,971 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1362,601,641 - 62,605,099 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0362,805,130 - 62,808,591 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0363,164,504 - 63,167,959 (+)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
cherubism  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleus  (IEA)

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
NKX1-1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1362,634,654 - 62,638,111 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl362,634,783 - 62,638,111 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha365,150,929 - 65,154,386 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0363,109,511 - 63,112,971 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl363,109,640 - 63,112,971 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1362,601,641 - 62,605,099 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0362,805,130 - 62,808,591 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0363,164,504 - 63,167,959 (+)NCBIUU_Cfam_GSD_1.0
NKX1-1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3841,402,932 - 1,406,442 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl41,402,932 - 1,406,442 (-)EnsemblGRCh38hg38GRCh38
GRCh3741,396,720 - 1,400,230 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3641,380,072 - 1,392,453 (-)NCBINCBI36Build 36hg18NCBI36
Celera41,324,669 - 1,339,840 (-)NCBICelera
Cytogenetic Map4p16.3NCBI
HuRef41,366,669 - 1,377,571 (-)NCBIHuRef
CHM1_141,396,490 - 1,400,000 (-)NCBICHM1_1
T2T-CHM13v2.041,401,206 - 1,404,716 (-)NCBIT2T-CHM13v2.0
Nkx1-1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39533,588,078 - 33,591,434 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl533,588,078 - 33,591,320 (-)EnsemblGRCm39 Ensembl
GRCm38533,430,734 - 33,434,090 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl533,430,734 - 33,433,976 (-)EnsemblGRCm38mm10GRCm38
MGSCv37533,773,383 - 33,776,625 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36533,773,383 - 33,776,625 (-)NCBIMGSCv36mm8
Celera530,909,910 - 30,913,492 (-)NCBICelera
Cytogenetic Map5B1NCBI
cM Map517.65NCBI
Nkx1-1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81481,521,206 - 81,524,788 (+)NCBIGRCr8
mRatBN7.21477,296,676 - 77,300,575 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1477,296,796 - 77,300,036 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01482,603,538 - 82,607,031 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1482,603,671 - 82,607,031 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01483,287,754 - 83,291,039 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41483,216,329 - 83,219,569 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1476,215,871 - 76,219,364 (+)NCBICelera
Cytogenetic Map14q21NCBI
Nkx1-1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955514763,160 - 781,635 (-)NCBIChiLan1.0ChiLan1.0
NKX1-1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v231,736,687 - 1,740,204 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan141,703,817 - 1,707,333 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v041,547,939 - 1,551,457 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.141,423,117 - 1,430,833 (-)NCBIpanpan1.1PanPan1.1panPan2
Nkx1-1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528568,207,850 - 68,209,154 (+)NCBIHiC_Itri_2
SpeTri2.0NW_00493647721,909,542 - 21,910,599 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NKX1-1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8608,098 - 611,859 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18608,327 - 611,859 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Nkx1-1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475525,897,061 - 25,899,884 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475525,896,953 - 25,900,096 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in NKX1-1
30 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

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium
Low 5
Below cutoff 1 6 1 1 1 1 2 6 3 1 1

Sequence


RefSeq Acc Id: ENSCAFT00000046621   ⟹   ENSCAFP00000039953
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl362,634,783 - 62,638,111 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845000483   ⟹   ENSCAFP00845000329
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl363,109,640 - 63,112,971 (+)Ensembl
RefSeq Acc Id: XM_003638978   ⟹   XP_003639026
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1362,634,654 - 62,638,111 (+)NCBI
Dog10K_Boxer_Tasha365,150,929 - 65,154,386 (+)NCBI
Sequence:
RefSeq Acc Id: XM_038471185   ⟹   XP_038327113
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1362,601,641 - 62,605,099 (+)NCBI
RefSeq Acc Id: XM_038532105   ⟹   XP_038388033
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0363,164,504 - 63,167,959 (+)NCBI
RefSeq Acc Id: XM_038596361   ⟹   XP_038452289
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0362,805,130 - 62,808,591 (+)NCBI
RefSeq Acc Id: XM_038660557   ⟹   XP_038516485
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0363,109,511 - 63,112,971 (+)NCBI
RefSeq Acc Id: XP_003639026   ⟸   XM_003638978
- UniProtKB: A0A8C0MEV5 (UniProtKB/TrEMBL),   A0A8P0SU59 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000039953   ⟸   ENSCAFT00000046621
RefSeq Acc Id: XP_038327113   ⟸   XM_038471185
RefSeq Acc Id: XP_038452289   ⟸   XM_038596361
RefSeq Acc Id: XP_038516485   ⟸   XM_038660557
- UniProtKB: A0A8I3MC72 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038388033   ⟸   XM_038532105
- UniProtKB: A0A8C0MEV5 (UniProtKB/TrEMBL),   A0A8P0SU59 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845000329   ⟸   ENSCAFT00845000483
Protein Domains
Homeobox

Promoters
RGD ID:13682804
Promoter ID:EPDNEW_C874
Type:initiation region
Name:NKX1-1_1
Description:NK1 homeobox 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1362,634,720 - 62,634,780EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000031073 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030003705 UniProtKB/TrEMBL
  ENSCAFG00845000317 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000046621.2 UniProtKB/TrEMBL
  ENSCAFT00030006929.1 UniProtKB/TrEMBL
  ENSCAFT00845000483 ENTREZGENE
  ENSCAFT00845000483.1 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
NCBI Gene NKX1-1 ENTREZGENE
PANTHER HOMEOBOX PROTEIN NKX UniProtKB/TrEMBL
  NK1 TRANSCRIPTION FACTOR-RELATED PROTEIN 1 UniProtKB/TrEMBL
Pfam Homeodomain UniProtKB/TrEMBL
PRINTS HOMEOBOX UniProtKB/TrEMBL
PROSITE HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP SSF46689 UniProtKB/TrEMBL
UniProt A0A8C0MEV5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3MC72 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0SU59 ENTREZGENE
UniProt Secondary A0A8P0SU59 UniProtKB/TrEMBL
VGNC ID VGNC:43831 ENTREZGENE