VGLL4 vestigial like family member 4 [Homo sapiens (human)] - Gene

Summary

Official Symbol: VGLL4provided by HGNC
Official Full Name: vestigial like family member 4provided by HGNC
Primary source: HGNC:HGNC:28966
See related: Ensembl:ENSG00000144560 MIM:618692; AllianceGenome:HGNC:28966
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: VGL-4
Summary: Predicted to enable transcription coactivator binding activity. Involved in negative regulation of Wnt signaling pathway; negative regulation of cell growth; and negative regulation of hippo signaling. Predicted to be located in nucleus. [provided by Alliance of Genome Resources, Dec 2024]
Expression: Ubiquitous expression in ovary (RPKM 26.1), thyroid (RPKM 18.5) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 3p25.3-p25.2

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	3	NC_000003.12 (11556067..11721815, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	3	NC_060927.1 (11551371..11717542, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	3	NC_000003.11 (11597541..11762013, complement)

Chromosome 3 - NC_000003.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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?

VGLL4-TEAD1 promotes vascular smooth muscle cell differentiation from human pluripotent stem cells via TET2.
Title: VGLL4-TEAD1 promotes vascular smooth muscle cell differentiation from human pluripotent stem cells via TET2.
Biochemical properties of VGLL4 from Homo sapiens and Tgi from Drosophila melanogaster and possible biological implications.
Title: Biochemical properties of VGLL4 from Homo sapiens and Tgi from Drosophila melanogaster and possible biological implications.
The lncRNA MEG3/miR-16-5p/VGLL4 regulatory axis is involved in etoposide-induced senescence of tumor cells.
Title: The lncRNA MEG3/miR-16-5p/VGLL4 regulatory axis is involved in etoposide-induced senescence of tumor cells.
HOXB13 suppresses proliferation, migration and invasion, and promotes apoptosis of gastric cancer cells through transcriptional activation of VGLL4 to inhibit the involvement of TEAD4 in the Hippo signaling pathway.
Title: HOXB13 suppresses proliferation, migration and invasion, and promotes apoptosis of gastric cancer cells through transcriptional activation of VGLL4 to inhibit the involvement of TEAD4 in the Hippo signaling pathway.
VGLL4 inhibits YAP1/TEAD signaling to suppress the epidermal squamous cell carcinoma cancer phenotype.
Title: VGLL4 inhibits YAP1/TEAD signaling to suppress the epidermal squamous cell carcinoma cancer phenotype.
LINC00641 regulates prostate cancer cell growth and apoptosis via the miR-365a-3p/VGLL4 axis.
Title: LINC00641 regulates prostate cancer cell growth and apoptosis via the miR-365a-3p/VGLL4 axis.
VGLL4 interacts with STAT3 to function as a tumor suppressor in triple-negative breast cancer
Title: VGLL4 interacts with STAT3 to function as a tumor suppressor in triple-negative breast cancer.
Identification of VGLL4 as an important regulator of PD-L1 expression and a central role of VGLL4 and YAP in the regulation of tumor immunity.
Title: Loss of VGLL4 suppresses tumor PD-L1 expression and immune evasion.
our RNA-seq analyses suggest that while the stimulatory effects of CytoD on osteogenesis are pleiotropic and depend on the biological state of the cell type, a small group of genes including VGLL4 may contribute to MSC commitment toward the bone lineage.
Title: Validation of Osteogenic Properties of Cytochalasin D by High-Resolution RNA-Sequencing in Mesenchymal Stem Cells Derived from Bone Marrow and Adipose Tissues.
Data report that VGLL4 functions as a suppressor of breast tumor (BC) growth and progression. Its low expression correlated with a poor prognosis. Its ectopic expression in BC cell lines reduced cell proliferation, migration, and tumor formation in xenograft mouse model. VGLL4 interacts with TEAD1 via its second TEAD-interacting domain, antagonizing YAP-dependent tumor growth.
Title: VGLL4 Selectively Represses YAP-Dependent Gene Induction and Tumorigenic Phenotypes in Breast Cancer.

Submit: New GeneRIF Correction See all GeneRIFs (27)

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

EBI GWAS Catalog

Description
A genome-wide association study on common SNPs and rare CNVs in anorexia nervosa. EBI GWAS Catalog EBI GWAS CatalogPubMed
Common variants in left/right asymmetry genes and pathways are associated with relative hand skill. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genome-wide association study of monoamine metabolite levels in human cerebrospinal fluid. EBI GWAS Catalog EBI GWAS CatalogPubMed
Meta-analysis of genome-wide association studies of adult height in East Asians identifies 17 novel loci. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

SHGC-76717 (e-PCR)
- UniSTS:33306

SHGC-76706 (e-PCR)
- UniSTS:19260

SHGC-144750 (e-PCR)
- UniSTS:172393

D3S3828 (e-PCR)
- UniSTS:56171

D3S3714 (e-PCR), detects polymorphism
- UniSTS:4977

SHGC-76714 (e-PCR)
- UniSTS:71794

RH48202 (e-PCR)
- UniSTS:65150

D3S3680 (e-PCR), detects polymorphism
- UniSTS:4503

RH36277 (e-PCR)
- UniSTS:36804

RH15949 (e-PCR)
- UniSTS:455

RH25345 (e-PCR)
- UniSTS:90316

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transcription coactivator binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in negative regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of Wnt signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of cardiac muscle cell proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of cell growth	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of hippo signaling	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of hippo signaling	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of protein catabolic process	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: transcription cofactor vestigial-like protein 4

Names: Vestigial-like 4; vestigial like 4

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)

NM_001128219.3 → NP_001121691.1 transcription cofactor vestigial-like protein 4 isoform a

See identical proteins and their annotated locations for NP_001121691.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) encodes the longest isoform (a).

Source sequence(s)

BU682809, D50911, DA383197, DA386938, DR159250

Consensus CDS

CCDS46754.1

Related

ENSP00000404251.2, ENST00000430365.7

Conserved Domains (2) summary

smart00711
Location:240 → 255

TDU; Short repeats in human TONDU, fly vestigial and other proteins

pfam15245
Location:14 → 230

VGLL4; Transcription cofactor vestigial-like protein 4
NM_001128220.3 → NP_001121692.1 transcription cofactor vestigial-like protein 4 isoform c

See identical proteins and their annotated locations for NP_001121692.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) contains alternate 5' exon structure and it thus differs in the 5' UTR and 5' coding region, compared to variant 1. The encoded isoform (c) has a distinct N-terminus and is shorter than isoform a.

Source sequence(s)

AK307708, BU682809, D50911

Consensus CDS

CCDS46755.1

UniProtKB/TrEMBL

Q0H0I7

Related

ENSP00000416615.2, ENST00000451674.6

Conserved Domains (2) summary

smart00711
Location:154 → 169

TDU; Short repeats in human TONDU, fly vestigial and other proteins

pfam15245
Location:6 → 144

VGLL4; Transcription cofactor vestigial-like protein 4
NM_001128221.3 → NP_001121693.1 transcription cofactor vestigial-like protein 4 isoform d

See identical proteins and their annotated locations for NP_001121693.1

Status: VALIDATED

Description

Transcript Variant: This variant (4) contains alternate 5' exon structure and it thus differs in the 5' UTR and 5' coding region, compared to variant 1. The encoded isoform (d) has a distinct N-terminus and is shorter than isoform a.

Source sequence(s)

AK308761, BU682809, D50911

Consensus CDS

CCDS46756.1

UniProtKB/TrEMBL

Q0H0I7

Related

ENSP00000402878.2, ENST00000424529.6

Conserved Domains (2) summary

smart00711
Location:150 → 165

TDU; Short repeats in human TONDU, fly vestigial and other proteins

pfam15245
Location:1 → 140

VGLL4; Transcription cofactor vestigial-like protein 4
NM_001284390.2 → NP_001271319.1 transcription cofactor vestigial-like protein 4 isoform e

See identical proteins and their annotated locations for NP_001271319.1

Status: VALIDATED

Description

Transcript Variant: This variant (5) contains alternate 5' exon structure and it thus differs in the 5' UTR and 5' coding region, compared to variant 1. The encoded isoform (e) has a distinct N-terminus and is shorter than isoform a.

Source sequence(s)

BC000763, BU682809, D50911, DA383197

Consensus CDS

CCDS68343.1

UniProtKB/TrEMBL

A0A0A6YYI5

Related

ENSP00000413030.2, ENST00000426568.5

Conserved Domains (2) summary

smart00711
Location:239 → 254

TDU; Short repeats in human TONDU, fly vestigial and other proteins

pfam15245
Location:27 → 229

VGLL4; Transcription cofactor vestigial-like protein 4
NM_001284391.1 → NP_001271320.1 transcription cofactor vestigial-like protein 4 isoform f

See identical proteins and their annotated locations for NP_001271320.1

Status: VALIDATED

Description

Transcript Variant: This variant (6) contains alternate 5' exon structure and it thus differs in the 5' UTR and 5' coding region, compared to variant 1. The encoded isoform (f) has a distinct N-terminus and is shorter than isoform a.

Source sequence(s)

AC022001, AI809612, AK300344, BU682809, D50911, DA383197

Consensus CDS

CCDS68342.1

UniProtKB/TrEMBL

A0A024R2F0, A0A9K3Y712, G5E9M9, Q0H0I7

Related

ENSP00000404624.1, ENST00000413604.5

Conserved Domains (2) summary

smart00711
Location:175 → 190

TDU; Short repeats in human TONDU, fly vestigial and other proteins

pfam15245
Location:1 → 165

VGLL4; Transcription cofactor vestigial-like protein 4
NM_014667.4 → NP_055482.2 transcription cofactor vestigial-like protein 4 isoform b

See identical proteins and their annotated locations for NP_055482.2

Status: VALIDATED

Description

Transcript Variant: This variant (2) contains alternate 5' exon structure and it thus differs in the 5' UTR and 5' coding region, compared to variant 1. The encoded isoform (b) has a distinct N-terminus and is shorter than isoform a.

Source sequence(s)

AK130542, BU682809, D50911, DA383197

Consensus CDS

CCDS2606.1

UniProtKB/Swiss-Prot

A0A075B6E4, B4DTS7, G5E9M7, J3KN68, Q14135, Q7L5V0, Q9BQ78

Related

ENSP00000273038.3, ENST00000273038.7

Conserved Domains (2) summary

smart00711
Location:234 → 249

TDU; Short repeats in human TONDU, fly vestigial and other proteins

pfam15245
Location:8 → 223

VGLL4; Transcription cofactor vestigial-like protein 4

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

NC_000003.12 Reference GRCh38.p14 Primary Assembly

Range

11556067..11721815 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_047449259.1 → XP_047305215.1 transcription cofactor vestigial-like protein 4 isoform X1
XM_024453835.2 → XP_024309603.1 transcription cofactor vestigial-like protein 4 isoform X3

UniProtKB/Swiss-Prot

A0A075B6E4, B4DTS7, G5E9M7, J3KN68, Q14135, Q7L5V0, Q9BQ78

Conserved Domains (2) summary

smart00711
Location:234 → 249

TDU; Short repeats in human TONDU, fly vestigial and other proteins

pfam15245
Location:8 → 223

VGLL4; Transcription cofactor vestigial-like protein 4
XM_024453836.2 → XP_024309604.1 transcription cofactor vestigial-like protein 4 isoform X3

UniProtKB/Swiss-Prot

A0A075B6E4, B4DTS7, G5E9M7, J3KN68, Q14135, Q7L5V0, Q9BQ78

Conserved Domains (2) summary

smart00711
Location:234 → 249

TDU; Short repeats in human TONDU, fly vestigial and other proteins

pfam15245
Location:8 → 223

VGLL4; Transcription cofactor vestigial-like protein 4
XM_047449260.1 → XP_047305216.1 transcription cofactor vestigial-like protein 4 isoform X2
XM_047449261.1 → XP_047305217.1 transcription cofactor vestigial-like protein 4 isoform X4

UniProtKB/TrEMBL

A0A024R2F0, A0A9K3Y712, G5E9M9, Q0H0I7
XM_011534269.2 → XP_011532571.1 transcription cofactor vestigial-like protein 4 isoform X4

See identical proteins and their annotated locations for XP_011532571.1

UniProtKB/TrEMBL

A0A024R2F0, A0A9K3Y712, G5E9M9, Q0H0I7

Conserved Domains (2) summary

smart00711
Location:175 → 190

TDU; Short repeats in human TONDU, fly vestigial and other proteins

pfam15245
Location:1 → 165

VGLL4; Transcription cofactor vestigial-like protein 4
XM_047449262.1 → XP_047305218.1 transcription cofactor vestigial-like protein 4 isoform X5

UniProtKB/TrEMBL

E7EQU6
XM_024453837.2 → XP_024309605.1 transcription cofactor vestigial-like protein 4 isoform X7

UniProtKB/TrEMBL

E7EQU6

Related

ENSP00000394439.1, ENST00000418000.5

Conserved Domains (1) summary

pfam15245
Location:8 → 204

VGLL4; Transcription cofactor vestigial-like protein 4
XM_047449263.1 → XP_047305219.1 transcription cofactor vestigial-like protein 4 isoform X6

UniProtKB/TrEMBL

E7ERW0

Alternate T2T-CHM13v2.0

Genomic

NC_060927.1 Alternate T2T-CHM13v2.0

Range

11551371..11717542 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054348499.1 → XP_054204474.1 transcription cofactor vestigial-like protein 4 isoform X1
XM_054348501.1 → XP_054204476.1 transcription cofactor vestigial-like protein 4 isoform X3
XM_054348502.1 → XP_054204477.1 transcription cofactor vestigial-like protein 4 isoform X3
XM_054348500.1 → XP_054204475.1 transcription cofactor vestigial-like protein 4 isoform X2
XM_054348503.1 → XP_054204478.1 transcription cofactor vestigial-like protein 4 isoform X8
XM_054348507.1 → XP_054204482.1 transcription cofactor vestigial-like protein 4 isoform X8
XM_054348504.1 → XP_054204479.1 transcription cofactor vestigial-like protein 4 isoform X5

UniProtKB/TrEMBL

E7EQU6
XM_054348506.1 → XP_054204481.1 transcription cofactor vestigial-like protein 4 isoform X7

UniProtKB/TrEMBL

E7EQU6
XM_054348505.1 → XP_054204480.1 transcription cofactor vestigial-like protein 4 isoform X6

UniProtKB/TrEMBL

E7ERW0