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HOXB3 homeobox B3 [ Homo sapiens (human) ]

Gene ID: 3213, updated on 6-Jul-2025
Official Symbol
HOXB3provided by HGNC
Official Full Name
homeobox B3provided by HGNC
Primary source
HGNC:HGNC:5114
See related
Ensembl:ENSG00000120093 MIM:142966; AllianceGenome:HGNC:5114
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
HOX2; HOX2G; Hox-2.7
Summary
This gene is a member of the Antp homeobox family and encodes a nuclear protein with a homeobox DNA-binding domain. It is included in a cluster of homeobox B genes located on chromosome 17. The encoded protein functions as a sequence-specific transcription factor that is involved in development. Increased expression of this gene is associated with a distinct biologic subset of acute myeloid leukemia (AML). [provided by RefSeq, Jul 2008]
Expression
Broad expression in kidney (RPKM 1.6), fat (RPKM 1.3) and 21 other tissues See more
Orthologs
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See HOXB3 in Genome Data Viewer
Location:
17q21.32
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (48548870..48590241, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (49412447..49453831, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (46626232..46667603, complement)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:46608263-46608843 Neighboring gene homeobox B1 Neighboring gene Sharpr-MPRA regulatory region 4554 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:46620694-46621339 Neighboring gene HOXB cluster antisense RNA 1 Neighboring gene homeobox B2 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:46629432-46630177 Neighboring gene HOXB cluster antisense RNA 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:46641715-46642519 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr17:46647249-46648100 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:46659314-46660126 Neighboring gene homeobox B4 Neighboring gene HOXB associated long intergenic non-coding RNA Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12333 Neighboring gene microRNA 10a Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8654 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:46671071-46671578 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:46671579-46672084 Neighboring gene HOXB cluster antisense RNA 3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:46673127-46673798 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12335 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12336 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8655 Neighboring gene homeobox B5 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8656 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12337 Neighboring gene homeobox B6

  • Project title: Tissue-specific circular RNA induction during human fetal development
  • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
  • BioProject: PRJNA270632
  • Publication: PMID 26076956
  • Analysis date: Mon Apr 2 22:54:59 2018

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

EBI GWAS Catalog

Description
A genome-wide association meta-analysis identifies new childhood obesity loci.
EBI GWAS Catalog

Replication interactions

Interaction Pubs
Knockdown of homeobox B3 (HOXB3) by shRNA library screening inhibits HIV-1 replication in cultured Jurkat T-cells PubMed

Go to the HIV-1, Human Interaction Database

Products Interactant Other Gene Complex Source Pubs Description

Markers

Gene Ontology Provided by GOA

Process Evidence Code Pubs
involved_in angiogenesis IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in anterior/posterior pattern specification IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within anterior/posterior pattern specification IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within cartilage development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within definitive hemopoiesis IEA
Inferred from Electronic Annotation
more info
 
involved_in embryonic skeletal system morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within embryonic skeletal system morphogenesis IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within face development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within glossopharyngeal nerve morphogenesis IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within hematopoietic progenitor cell differentiation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within regulation of neurogenesis IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within rhombomere development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within thyroid gland development IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in chromatin ISA
Inferred from Sequence Alignment
more info
 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 
Preferred Names
homeobox protein Hox-B3
Names
homeo box 2G
homeobox protein Hox-2.7
homeobox protein Hox-2G

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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_001330322.2NP_001317251.1  homeobox protein Hox-B3 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and uses a downstream translation start site. The encoded isoform (2) has a shorter N-terminus than isoform 1.
    Source sequence(s)
    AK299265, AK316245, CN430280, CN430281
    Consensus CDS
    CCDS82154.1
    UniProtKB/TrEMBL
    B3KNJ7
    Related
    ENSP00000418729.1, ENST00000489475.5
    Conserved Domains (2) summary
    pfam00046
    Location:119172
    Homeobox; Homeobox domain
    pfam13293
    Location:293356
    DUF4074; Domain of unknown function (DUF4074)
  2. NM_001330323.1NP_001317252.1  homeobox protein Hox-B3 isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region, and uses a downstream translation start site. The encoded isoform (3) has a shorter N-terminus than isoform 1.
    Source sequence(s)
    AK299226, AK316245, CN430280, CN430281, DA748374
    Consensus CDS
    CCDS82153.1
    UniProtKB/TrEMBL
    F8VXG0
    Related
    ENSP00000418035.1, ENST00000460160.5
    Conserved Domains (2) summary
    pfam00046
    Location:60113
    Homeobox; Homeobox domain
    pfam13293
    Location:234297
    DUF4074; Domain of unknown function (DUF4074)
  3. NM_001384747.1NP_001371676.1  homeobox protein Hox-B3 isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4), as well as variants 1 and 5, encodes isoform 1.
    Source sequence(s)
    AC103702
    Consensus CDS
    CCDS11528.1
    UniProtKB/Swiss-Prot
    A8K567, B7Z5N8, B7Z5P8, B7ZAD0, D3DTV3, O95615, P14651, P17484
    UniProtKB/TrEMBL
    B3KNJ7
    Related
    ENSP00000418892.1, ENST00000476342.1
    Conserved Domains (2) summary
    pfam00046
    Location:192245
    Homeobox; Homeobox domain
    pfam13293
    Location:366429
    DUF4074; Domain of unknown function (DUF4074)
  4. NM_001384749.1NP_001371678.1  homeobox protein Hox-B3 isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5), as well as variants 1 and 4, encodes isoform 1.
    Source sequence(s)
    AC103702
    Consensus CDS
    CCDS11528.1
    UniProtKB/Swiss-Prot
    A8K567, B7Z5N8, B7Z5P8, B7ZAD0, D3DTV3, O95615, P14651, P17484
    UniProtKB/TrEMBL
    B3KNJ7
    Related
    ENSP00000420595.1, ENST00000498678.6
    Conserved Domains (2) summary
    pfam00046
    Location:192245
    Homeobox; Homeobox domain
    pfam13293
    Location:366429
    DUF4074; Domain of unknown function (DUF4074)
  5. NM_001384750.1NP_001371679.1  homeobox protein Hox-B3 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6), as well as variant 2, encodes isoform 2.
    Source sequence(s)
    AC103702
    Consensus CDS
    CCDS82154.1
    UniProtKB/TrEMBL
    B3KNJ7
    Related
    ENSP00000419676.1, ENST00000472863.5
    Conserved Domains (2) summary
    pfam00046
    Location:119172
    Homeobox; Homeobox domain
    pfam13293
    Location:293356
    DUF4074; Domain of unknown function (DUF4074)
  6. NM_002146.4NP_002137.4  homeobox protein Hox-B3 isoform 1

    See identical proteins and their annotated locations for NP_002137.4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1). Variants 1, 4, and 5 all encode the same isoform (1).
    Source sequence(s)
    AC103702, AI633956, AK027609, CN358294, DA735249, X16667
    Consensus CDS
    CCDS11528.1
    UniProtKB/Swiss-Prot
    A8K567, B7Z5N8, B7Z5P8, B7ZAD0, D3DTV3, O95615, P14651, P17484
    UniProtKB/TrEMBL
    B3KNJ7
    Related
    ENSP00000308252.4, ENST00000311626.8
    Conserved Domains (2) summary
    pfam00046
    Location:192245
    Homeobox; Homeobox domain
    pfam13293
    Location:366429
    DUF4074; Domain of unknown function (DUF4074)

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_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    48548870..48590241 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047435900.1XP_047291856.1  homeobox protein Hox-B3 isoform X1

  2. XM_017024560.2XP_016880049.1  homeobox protein Hox-B3 isoform X1

    Conserved Domains (2) summary
    pfam00046
    Location:339391
    Homeobox; Homeobox domain
    pfam13293
    Location:513576
    DUF4074; Domain of unknown function (DUF4074)
  3. XM_047435901.1XP_047291857.1  homeobox protein Hox-B3 isoform X1

  4. XM_047435899.1XP_047291855.1  homeobox protein Hox-B3 isoform X1

  5. XM_047435907.1XP_047291863.1  homeobox protein Hox-B3 isoform X5

    UniProtKB/TrEMBL
    B3KNJ7
  6. XM_024450737.2XP_024306505.1  homeobox protein Hox-B3 isoform X3

    UniProtKB/Swiss-Prot
    A8K567, B7Z5N8, B7Z5P8, B7ZAD0, D3DTV3, O95615, P14651, P17484
    UniProtKB/TrEMBL
    B3KNJ7
    Conserved Domains (2) summary
    pfam00046
    Location:192245
    Homeobox; Homeobox domain
    pfam13293
    Location:366429
    DUF4074; Domain of unknown function (DUF4074)
  7. XM_047435906.1XP_047291862.1  homeobox protein Hox-B3 isoform X2

    UniProtKB/TrEMBL
    F8VXG0
  8. XM_047435904.1XP_047291860.1  homeobox protein Hox-B3 isoform X4

    UniProtKB/TrEMBL
    B3KNJ7
  9. XM_047435902.1XP_047291858.1  homeobox protein Hox-B3 isoform X3

    UniProtKB/Swiss-Prot
    A8K567, B7Z5N8, B7Z5P8, B7ZAD0, D3DTV3, O95615, P14651, P17484
    UniProtKB/TrEMBL
    B3KNJ7
  10. XM_011524708.4XP_011523010.2  homeobox protein Hox-B3 isoform X2

    UniProtKB/TrEMBL
    F8VXG0
    Conserved Domains (2) summary
    pfam00046
    Location:60113
    Homeobox; Homeobox domain
    pfam13293
    Location:234297
    DUF4074; Domain of unknown function (DUF4074)
  11. XM_047435903.1XP_047291859.1  homeobox protein Hox-B3 isoform X3

    UniProtKB/Swiss-Prot
    A8K567, B7Z5N8, B7Z5P8, B7ZAD0, D3DTV3, O95615, P14651, P17484
    UniProtKB/TrEMBL
    B3KNJ7
  12. XM_011524726.3XP_011523028.1  homeobox protein Hox-B3 isoform X5

    See identical proteins and their annotated locations for XP_011523028.1

    UniProtKB/TrEMBL
    B3KNJ7
    Conserved Domains (2) summary
    pfam00046
    Location:119172
    Homeobox; Homeobox domain
    pfam13293
    Location:293356
    DUF4074; Domain of unknown function (DUF4074)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    49412447..49453831 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054315918.1XP_054171893.1  homeobox protein Hox-B3 isoform X1

  2. XM_054315919.1XP_054171894.1  homeobox protein Hox-B3 isoform X1

  3. XM_054315917.1XP_054171892.1  homeobox protein Hox-B3 isoform X1

  4. XM_054315924.1XP_054171899.1  homeobox protein Hox-B3 isoform X5

    UniProtKB/TrEMBL
    B3KNJ7
  5. XM_054315921.1XP_054171896.1  homeobox protein Hox-B3 isoform X3

    UniProtKB/TrEMBL
    B3KNJ7
  6. XM_054315923.1XP_054171898.1  homeobox protein Hox-B3 isoform X2

    UniProtKB/TrEMBL
    F8VXG0
  7. XM_054315922.1XP_054171897.1  homeobox protein Hox-B3 isoform X4

    UniProtKB/TrEMBL
    B3KNJ7
  8. XM_054315920.1XP_054171895.1  homeobox protein Hox-B3 isoform X2

    UniProtKB/TrEMBL
    F8VXG0