Nkx2-1 (NK2 homeobox 1) - Rat Genome Database

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Gene: Nkx2-1 (NK2 homeobox 1) Chinchilla lanigera
Analyze
Symbol: Nkx2-1
Name: NK2 homeobox 1
RGD ID: 8746632
Description: ENCODES a protein that exhibits core promoter sequence-specific DNA binding (ortholog); DNA binding (ortholog); DNA-binding transcription activator activity, RNA polymerase II-specific (ortholog); INVOLVED IN anatomical structure formation involved in morphogenesis (ortholog); animal organ morphogenesis (ortholog); axon guidance (ortholog); PARTICIPATES IN forkhead class A signaling pathway; ASSOCIATED WITH Benign Familial Chorea (ortholog); Brain-Lung-Thyroid Syndrome (ortholog); choreatic disease (ortholog); FOUND IN nucleoplasm (ortholog); nucleus (ortholog); transcription regulator complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: homeobox protein Nkx-2.1
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540924,612,635 - 24,616,430 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540924,612,490 - 24,616,360 (+)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
anatomical structure formation involved in morphogenesis  (ISO)
animal organ morphogenesis  (ISO)
axon guidance  (ISO)
brain development  (ISO)
cellular response to leptin stimulus  (ISO)
cerebral cortex cell migration  (ISO)
cerebral cortex GABAergic interneuron differentiation  (ISO)
cerebral cortex neuron differentiation  (ISO)
circadian rhythm  (ISO)
club cell differentiation  (ISO)
development of primary female sexual characteristics  (ISO)
developmental induction  (ISO)
embryonic lung development  (ISO)
endoderm development  (ISO)
epithelial tube branching involved in lung morphogenesis  (ISO)
feeding behavior  (ISO)
forebrain development  (ISO)
forebrain dorsal/ventral pattern formation  (ISO)
forebrain neuron differentiation  (ISO)
forebrain neuron fate commitment  (ISO)
GABAergic neuron differentiation  (ISO)
gene expression  (ISO)
globus pallidus development  (ISO)
hippocampus development  (ISO)
hypothalamus development  (ISO)
interneuron migration  (ISO)
Leydig cell differentiation  (ISO)
locomotory behavior  (ISO)
lung development  (ISO)
lung saccule development  (ISO)
negative regulation of cell migration  (ISO)
negative regulation of DNA-templated transcription  (ISO)
negative regulation of epithelial to mesenchymal transition  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
negative regulation of transforming growth factor beta receptor signaling pathway  (ISO)
neuron fate commitment  (ISO)
neuron migration  (ISO)
oligodendrocyte differentiation  (ISO)
pattern specification process  (ISO)
phospholipid metabolic process  (ISO)
pituitary gland development  (ISO)
positive regulation of circadian rhythm  (ISO)
positive regulation of DNA-templated transcription  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
regulation of blood volume by renin-angiotensin  (ISO)
regulation of DNA-templated transcription  (ISO)
regulation of transcription by RNA polymerase II  (ISO)
response to ethanol  (ISO)
response to hormone  (ISO)
response to lipopolysaccharide  (ISO)
telencephalon cell migration  (ISO)
telencephalon development  (ISO)
thyroid gland development  (ISO)
type II pneumocyte differentiation  (ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Nkx2-1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540924,612,635 - 24,616,430 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540924,612,490 - 24,616,360 (+)NCBIChiLan1.0ChiLan1.0
NKX2-1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381436,516,397 - 36,520,232 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1436,516,392 - 36,521,149 (-)EnsemblGRCh38hg38GRCh38
GRCh371436,985,602 - 36,989,437 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361436,055,353 - 36,059,167 (-)NCBINCBI36Build 36hg18NCBI36
Build 341436,055,352 - 36,058,654NCBI
Celera1416,849,149 - 16,852,977 (-)NCBICelera
Cytogenetic Map14q13.3NCBI
HuRef1417,100,276 - 17,104,039 (-)NCBIHuRef
CHM1_11436,984,732 - 36,988,564 (-)NCBICHM1_1
T2T-CHM13v2.01430,705,671 - 30,709,516 (-)NCBIT2T-CHM13v2.0
Nkx2-1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391256,578,741 - 56,583,570 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1256,578,743 - 56,583,693 (-)EnsemblGRCm39 Ensembl
GRCm381256,531,935 - 56,536,908 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1256,531,958 - 56,536,908 (-)EnsemblGRCm38mm10GRCm38
MGSCv371257,632,922 - 57,637,895 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361257,449,970 - 57,454,920 (-)NCBIMGSCv36mm8
Celera1257,681,286 - 57,686,296 (-)NCBICelera
Cytogenetic Map12C1NCBI
cM Map1224.42NCBI
Nkx2-1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8679,731,677 - 79,735,952 (-)NCBIGRCr8
mRatBN7.2673,996,601 - 74,001,483 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl673,996,601 - 73,999,791 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx674,392,972 - 74,396,162 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0674,699,372 - 74,702,565 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0674,126,847 - 74,130,040 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0677,418,096 - 77,423,383 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl677,418,096 - 77,421,286 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0686,945,224 - 86,950,040 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4676,916,943 - 76,920,133 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1676,920,108 - 76,923,259 (-)NCBI
Celera672,803,847 - 72,807,046 (-)NCBICelera
RH 3.4 Map6523.61RGD
Cytogenetic Map6q23NCBI
LOC100983103
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21537,786,124 - 37,826,698 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11437,002,629 - 37,043,203 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01417,224,870 - 17,273,252 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11435,403,557 - 35,627,438 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1435,404,127 - 35,626,722 (-)Ensemblpanpan1.1panPan2
NKX2-1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha814,886,591 - 14,888,646 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0815,197,690 - 15,202,516 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl815,197,699 - 15,201,982 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1814,896,830 - 14,898,885 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0814,963,572 - 14,965,627 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0815,253,618 - 15,255,673 (-)NCBIUU_Cfam_GSD_1.0
Nkx2-1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864047,011,599 - 47,015,298 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649410,517,488 - 10,520,566 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649410,517,488 - 10,520,567 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NKX2-1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl763,487,807 - 63,491,575 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1763,487,200 - 63,491,580 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2768,395,821 - 68,400,133 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NKX2-1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12413,274,118 - 13,317,533 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2413,310,846 - 13,317,056 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660532,266,777 - 2,311,899 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nkx2-1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624838300,458 - 305,517 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624838300,902 - 304,944 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000016799   ⟹   ENSCLAP00000016635
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495540924,612,635 - 24,616,430 (+)Ensembl
RefSeq Acc Id: XM_005376911   ⟹   XP_005376968
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540924,612,635 - 24,616,360 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005376912   ⟹   XP_005376969
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540924,612,490 - 24,616,360 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005376968 (Get FASTA)   NCBI Sequence Viewer  
  XP_005376969 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000016635.1
RefSeq Acc Id: XP_005376969   ⟸   XM_005376912
- Peptide Label: isoform X2
- UniProtKB: A0A8C2YQW0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005376968   ⟸   XM_005376911
- Peptide Label: isoform X1
- UniProtKB: A0A8C2YQW0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCLAP00000016635   ⟸   ENSCLAT00000016799
Protein Domains
Homeobox


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000011429 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000016799.1 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
  Homeobox_NK-like UniProtKB/TrEMBL
NCBI Gene Nkx2-1 ENTREZGENE
PANTHER HOMEOBOX PROTEIN NKX UniProtKB/TrEMBL
  HOMEOBOX PROTEIN NKX-2.1 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 A0A8C2YQW0 ENTREZGENE, UniProtKB/TrEMBL