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HDGFL3 HDGF like 3 [ Homo sapiens (human) ]

Gene ID: 50810, updated on 5-Mar-2024

Summary

Official Symbol
HDGFL3provided by HGNC
Official Full Name
HDGF like 3provided by HGNC
Primary source
HGNC:HGNC:24937
See related
Ensembl:ENSG00000166503 MIM:616643; AllianceGenome:HGNC:24937
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
HDGF2; HRP-3; HDGF-2; CGI-142; HDGFRP3
Summary
Predicted to enable double-stranded DNA binding activity; microtubule binding activity; and transcription coregulator activity. Predicted to be involved in several processes, including microtubule polymerization; negative regulation of microtubule depolymerization; and neuron projection development. Located in nucleoplasm. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in testis (RPKM 18.5), brain (RPKM 17.0) and 22 other tissues See more
Orthologs
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Genomic context

See HDGFL3 in Genome Data Viewer
Location:
15q25.2
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (83112738..83207823, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (80976764..81071906, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (83796505..83876575, complement)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6758 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9969 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9970 Neighboring gene Sharpr-MPRA regulatory region 9115 Neighboring gene microRNA 4515 Neighboring gene uncharacterized LOC124903543 Neighboring gene uncharacterized LOC124903588 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6760 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6761 Neighboring gene transmembrane 6 superfamily member 1 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr15:83826782-83827981 Neighboring gene NANOG hESC enhancer GRCh37_chr15:83835576-83836077 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9971 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6762 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:83876873-83877486 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr15:83889876-83891075 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr15:83893658-83894857 Neighboring gene MPRA-validated peak2407 silencer Neighboring gene uncharacterized LOC105370932 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:83952807-83953307 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:83954077-83954577 Neighboring gene basonuclin zinc finger protein 1 Neighboring gene NANOG hESC enhancer GRCh37_chr15:83979362-83979907 Neighboring gene uncharacterized LOC105370933

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

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables growth factor activity IEA
Inferred from Electronic Annotation
more info
 
enables microtubule binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables tubulin binding ISS
Inferred from Sequence or Structural Similarity
more info
 
Process Evidence Code Pubs
involved_in chromatin remodeling IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in microtubule polymerization ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of microtubule depolymerization ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in neuron projection development ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in signal transduction IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in cytosol ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in extracellular region HDA PubMed 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
hepatoma-derived growth factor-related protein 3
Names
hepatoma-derived growth factor 2
hepatoma-derived growth factor, related protein 3

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_016073.4NP_057157.1  hepatoma-derived growth factor-related protein 3

    See identical proteins and their annotated locations for NP_057157.1

    Status: VALIDATED

    Source sequence(s)
    AA725615, AC024270, AC103876, BC015483, BC040554
    Consensus CDS
    CCDS32314.1
    UniProtKB/Swiss-Prot
    Q9Y3E1
    Related
    ENSP00000299633.4, ENST00000299633.7
    Conserved Domains (1) summary
    cd05834
    Location:791
    HDGF_related; The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, ...

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    83112738..83207823 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006720554.5XP_006720617.1  hepatoma-derived growth factor-related protein 3 isoform X1

    See identical proteins and their annotated locations for XP_006720617.1

    Conserved Domains (1) summary
    cd05834
    Location:791
    HDGF_related; The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, ...

RNA

  1. XR_001751298.3 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    80976764..81071906 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054378137.1XP_054234112.1  hepatoma-derived growth factor-related protein 3 isoform X1