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NKX1-2 NK1 homeobox 2 [ Homo sapiens (human) ]

Gene ID: 390010, updated on 27-Nov-2024

Summary

Official Symbol
NKX1-2provided by HGNC
Official Full Name
NK1 homeobox 2provided by HGNC
Primary source
HGNC:HGNC:31652
See related
Ensembl:ENSG00000229544 AllianceGenome:HGNC:31652
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
NKX-1.1; C10orf121; bB238F13.2
Summary
Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in cell differentiation and regulation of transcription by RNA polymerase II. Predicted to be located in chromatin. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Low expression observed in reference dataset See more
Orthologs
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Genomic context

See NKX1-2 in Genome Data Viewer
Location:
10q26.13
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (124445243..124450035, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (125323458..125328250, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (126133812..126138604, complement)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene NANOG hESC enhancer GRCh37_chr10:126092029-126092572 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:126107534-126108193 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126108167-126108681 Neighboring gene ornithine aminotransferase Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126135289-126136156 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr10:126139473-126140028 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr10:126140029-126140585 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2910 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126152248-126152748 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126152749-126153249 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126156959-126157916 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126163369-126163869 Neighboring gene ornithine aminotransferase pseudogene 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:126169709-126169860 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126170100-126170636 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126172247-126172783 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126172784-126173319 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126183769-126184346 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126184925-126185502 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126184347-126184924 Neighboring gene phospholysine phosphohistidine inorganic pyrophosphate phosphatase Neighboring gene ribosomal protein S10 pseudogene 18 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126210683-126211224 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4166 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_10852 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2911 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126221662-126222195 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126222196-126222728 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126228406-126228906 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4167 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_10867 Neighboring gene Neanderthal introgressed variant-containing enhancers experimental_10870 and experimental_10871 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126247815-126248795 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126254941-126255518 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_10873 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126294466-126295410 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4168 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126301501-126302011 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4169 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126310260-126310760 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126313637-126314592 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126314593-126315548 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126315549-126316504 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126318420-126319272 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126326782-126327282 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126328441-126329180 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4170 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126330659-126331396 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4171 Neighboring gene Sharpr-MPRA regulatory regions 4217 and 14470 Neighboring gene Sharpr-MPRA regulatory region 12473 Neighboring gene family with sequence similarity 53 member B Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4173 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126347140-126348026 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126352280-126352937 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126359217-126359750 Neighboring gene Sharpr-MPRA regulatory region 1593 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126362023-126362646 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2912 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:126373874-126374845 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4174 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126376343-126376844 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4175 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:126381504-126381695 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4176 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4177 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4178 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:126388301-126388971 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4179 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126393799-126394390 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:126397487-126398205 Neighboring gene Sharpr-MPRA regulatory region 10105 Neighboring gene FAM53B antisense RNA 1

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Gene Ontology Provided by GOA

Process Evidence Code Pubs
involved_in cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
 
Component Evidence Code Pubs
located_in chromatin ISA
Inferred from Sequence Alignment
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 

General protein information

Preferred Names
NK1 transcription factor-related protein 2
Names
NK1 transcription factor related, locus 2
homeobox protein SAX-1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001146340.3NP_001139812.1  NK1 transcription factor-related protein 2

    See identical proteins and their annotated locations for NP_001139812.1

    Status: VALIDATED

    Source sequence(s)
    AL445237, BX092002
    Consensus CDS
    CCDS59221.1
    UniProtKB/Swiss-Prot
    Q9UD57
    Related
    ENSP00000451945.1, ENST00000451024.5
    Conserved Domains (1) summary
    pfam00046
    Location:167219
    Homeobox; Homeobox domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000010.11 Reference GRCh38.p14 Primary Assembly

    Range
    124445243..124450035 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    125323458..125328250 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)