ZFR zinc finger RNA binding protein [Homo sapiens (human)] - Gene

Summary

Official Symbol: ZFRprovided by HGNC
Official Full Name: zinc finger RNA binding proteinprovided by HGNC
Primary source: HGNC:HGNC:17277
See related: Ensembl:ENSG00000056097 MIM:615635; AllianceGenome:HGNC:17277
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: ZFR1; SPG71
Summary: This gene encodes an RNA-binding protein characterized by its DZF (domain associated with zinc fingers) domain. The encoded protein may play a role in the nucleocytoplasmic shuttling of another RNA-binding protein, Staufen homolog 2, in neurons. Expression of this gene is regulated through alternative polyadenylation that mediates differential microRNA targeting. Elevated expression of this gene has been observed in human patients with pancreatic cancer and knockdown of this gene may result in reduced viability and invasion of pancreatic cancer cells. [provided by RefSeq, Sep 2016]
Expression: Ubiquitous expression in brain (RPKM 34.3), testis (RPKM 25.1) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 5p13.3

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	5	NC_000005.10 (32354350..32444740, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	5	NC_060929.1 (32468061..32558413, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	5	NC_000005.9 (32354456..32444846, complement)

Chromosome 5 - NC_000005.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Circulating RNA ZFR promotes hepatocellular carcinoma cell proliferation and epithelial-mesenchymal transition process through miR-624-3p/WEE1 axis.
Title: Circulating RNA ZFR promotes hepatocellular carcinoma cell proliferation and epithelial-mesenchymal transition process through miR-624-3p/WEE1 axis.
Circular RNA circZFR Promotes Hepatocellular Carcinoma Progression by Regulating miR-375/HMGA2 Axis.
Title: Circular RNA circZFR Promotes Hepatocellular Carcinoma Progression by Regulating miR-375/HMGA2 Axis.
The circular RNA circZFR phosphorylates Rb promoting cervical cancer progression by regulating the SSBP1/CDK2/cyclin E1 complex.
Title: The circular RNA circZFR phosphorylates Rb promoting cervical cancer progression by regulating the SSBP1/CDK2/cyclin E1 complex.
overexpression of ZFR in CRC and liver cancer cells led to accelerated tumor development. Consistently, knockdown of ZFR resulted in significantly decelerated tumor development.
Title: ZFR promotes cell proliferation and tumor development in colorectal and liver cancers.
Hyperglycaemia elevates ZFR in vivo and in vitro. ZFR can promote the proliferation and migration of human retinal microvascular endothelial cells cultured in high glucose condition.
Title: O- glycosylation can regulate the proliferation and migration of human retinal microvascular endothelial cells through ZFR in high glucose condition.
ZFR was confirmed as a target gene of miR-141-3p and negatively correlated with miR-141-3p expression in non-small cell lung cancer tissues.
Title: MiR-141-3p functions as a tumor suppressor through directly targeting ZFR in non-small cell lung cancer.
ZFR expression is tightly controlled during macrophage development; monocytes express truncated ZFR isoforms, while macrophages induce full-length ZFR to modulate macrophage-specific alternative splicing.
Title: ZFR coordinates crosstalk between RNA decay and transcription in innate immunity.
Identified a new circRNA, circZFR, that was significantly upregulated in papillary thyroid carcinoma (PTC). CircZFR could promote C8orf4 expression via serving as a competing endogenous RNA of miR-1261 in PTC cells. Rescue assays indicated that restoration of C8orf4 significantly attenuated the inhibitory effects of circZFR knockdown on PTC cell proliferation, migration and invasion.
Title: Circular RNA circZFR contributes to papillary thyroid cancer cell proliferation and invasion by sponging miR-1261 and facilitating C8orf4 expression.
polyadenylation allows differential negative feedback of human miRNA miR-579 on its host gene ZFR
Title: Alternative polyadenylation allows differential negative feedback of human miRNA miR-579 on its host gene ZFR.

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Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Protein interactions

Protein	Gene	Interaction	Pubs
Envelope surface glycoprotein gp120	env	Tandem affinity purification and mass spectrometry analysis identify zinc finger RNA binding protein (ZFR), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells	PubMed
Gag-Pol	gag-pol	Tandem affinity purification and mass spectrometry analysis identify zinc finger RNA binding protein (ZFR), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells	PubMed
Nef	nef	Tandem affinity purification and mass spectrometry analysis identify zinc finger RNA binding protein (ZFR), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells	PubMed
Pr55(Gag)	gag	Tandem affinity purification and mass spectrometry analysis identify zinc finger RNA binding protein (ZFR), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells	PubMed

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D5S2633 (e-PCR)
- UniSTS:55559

SHGC-132621 (e-PCR)
- UniSTS:185370

SHGC-52706 (e-PCR)
- UniSTS:4394

RH81088 (e-PCR)
- UniSTS:90699

D5S1926E (e-PCR)
- UniSTS:153933

SHGC-144201 (e-PCR)
- UniSTS:174164

SHGC-36633 (e-PCR)
- UniSTS:64411

RH18147 (e-PCR)
- UniSTS:209599

D5S1592E (e-PCR)
- UniSTS:151015

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA binding	HDA more info	PubMed
enables double-stranded RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables single-stranded RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: zinc finger RNA-binding protein

Names: M-phase phosphoprotein homolog

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.

Genomic

NG_051591.1 RefSeqGene

Range

5022..95412

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_016107.5 → NP_057191.2 zinc finger RNA-binding protein

See identical proteins and their annotated locations for NP_057191.2

Status: REVIEWED

Source sequence(s)

AJ314790, AL137258, BC017879, BC030540, BC051893, DA691446

Consensus CDS

CCDS34139.1

UniProtKB/Swiss-Prot

B2RNR5, Q05C08, Q3B7X5, Q6P5A3, Q86UA0, Q96KR1, Q9H6V4, Q9NTI1, Q9Y687

UniProtKB/TrEMBL

B2RNR6

Related

ENSP00000265069.8, ENST00000265069.13

Conserved Domains (4) summary

smart00572
Location:784 → 1038

DZF; domain in DSRM or ZnF_C2H2 domain containing proteins

smart00451
Location:581 → 612

ZnF_U1; U1-like zinc finger

sd00020
Location:584 → 606

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam05647
Location:420 → 477

Epiglycanin_TR; Tandem-repeating region of mucin, epiglycanin-like