TSPAN4 tetraspanin 4 [Homo sapiens (human)] - Gene

Summary

Official Symbol: TSPAN4provided by HGNC
Official Full Name: tetraspanin 4provided by HGNC
Primary source: HGNC:HGNC:11859
See related: Ensembl:ENSG00000214063 MIM:602644; AllianceGenome:HGNC:11859
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: NAG2; NAG-2; TM4SF7; TSPAN-4; TETRASPAN
Summary: The protein encoded by this gene is a member of the transmembrane 4 superfamily, also known as the tetraspanin family. Most of these members are cell-surface proteins that are characterized by the presence of four hydrophobic domains. The proteins mediate signal transduction events that play a role in the regulation of cell development, activation, growth and motility. This encoded protein is a cell surface glycoprotein and is similar in sequence to its family member CD53 antigen. It is known to complex with integrins and other transmembrane 4 superfamily proteins. Alternatively spliced transcript variants encoding different isoforms have been identified. [provided by RefSeq, Jul 2008]
Expression: Ubiquitous expression in fat (RPKM 26.0), spleen (RPKM 24.1) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 11p15.5

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	11	NC_000011.10 (842852..867111)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	11	NC_060935.1 (894229..918529)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	11	NC_000011.9 (842852..867111)

Chromosome 11 - NC_000011.10 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?

TSPAN4 and migrasomes in atherosclerosis regression correlated to myocardial infarction and pan-cancer progression.
Title: TSPAN4 and migrasomes in atherosclerosis regression correlated to myocardial infarction and pan-cancer progression.
Exome sequencing of child-parent trios with bladder exstrophy: Findings in 26 children.
Title: Exome sequencing of child-parent trios with bladder exstrophy: Findings in 26 children.
Identification of TSPAN4 as Novel Histamine H4 Receptor Interactor.
Title: Identification of TSPAN4 as Novel Histamine H(4) Receptor Interactor.
TM4SF4/il-TMP has the potential to be biomarker in a hepatocellular carcinoma and plays a crucial role in promotion of cancer cell proliferation
Title: Human tetraspanin transmembrane 4 superfamily member 4 or intestinal and liver tetraspan membrane protein is overexpressed in hepatocellular carcinoma and accelerates tumor cell growth.
Observational study of gene-disease association. (HuGE Navigator)
Title: New genetic associations detected in a host response study to hepatitis B vaccine.

Submit: New GeneRIF Correction

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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Replication interactions

Interaction	Pubs
HIV-1 infection (VSV-G pseudotyped) of CEMT4 T cells downregulates plasma membrane expression of TSPAN4	PubMed

Protein interactions

Protein	Gene	Interaction	Pubs
Envelope transmembrane glycoprotein gp41	env	A synthetic peptide corresponding to the immunosuppressive domain (amino acids 574-592) of HIV-1 gp41 downregulates the expression of tetraspanin 4 (TSPAN4) in peptide-treated PBMCs	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH41790 (e-PCR)
- UniSTS:38155

STS-W47645 (e-PCR)
- UniSTS:40724

RH121967 (e-PCR)
- UniSTS:43289

RH47994 (e-PCR)
- UniSTS:15387

D11S2243E (e-PCR)
- UniSTS:39225

G32609 (e-PCR)
- UniSTS:117192

A009K14 (e-PCR)
- UniSTS:59101

RH48177 (e-PCR)
- UniSTS:12532

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables antigen binding	IDA Inferred from Direct Assay more info	PubMed
enables integrin binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in protein-containing complex assembly	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in focal adhesion	HDA more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in vesicle	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: tetraspanin-4

Names: novel antigen 2; tetraspan TM4SF; transmembrane 4 superfamily member 7

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_001025234.2 → NP_001020405.1 tetraspanin-4 isoform a

See identical proteins and their annotated locations for NP_001020405.1

Status: REVIEWED

Description

Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1, 2, 3, 4, 5 and 6 encode the same isoform (a).

Source sequence(s)

BC000389, BM555783, BM755435, BQ679002

Consensus CDS

CCDS7721.1

UniProtKB/Swiss-Prot

O14817, Q6IAP6

UniProtKB/TrEMBL

J3KQ42

Related

ENSP00000380554.1, ENST00000397406.5

Conserved Domains (2) summary

cd03165
Location:105 → 202

NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...

pfam00335
Location:9 → 226

Tetraspannin; Tetraspanin family
NM_001025235.2 → NP_001020406.1 tetraspanin-4 isoform a

See identical proteins and their annotated locations for NP_001020406.1

Status: REVIEWED

Description

Transcript Variant: This variant (3) differs in the 5' UTR, compared to variant 1. Variants 1, 2, 3, 4, 5 and 6 encode the same isoform (a).

Source sequence(s)

AL543667, BC000389, BM555783, BM755435

Consensus CDS

CCDS7721.1

UniProtKB/Swiss-Prot

O14817, Q6IAP6

UniProtKB/TrEMBL

J3KQ42

Conserved Domains (2) summary

cd03165
Location:105 → 202

NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...

pfam00335
Location:9 → 226

Tetraspannin; Tetraspanin family
NM_001025236.2 → NP_001020407.1 tetraspanin-4 isoform a

See identical proteins and their annotated locations for NP_001020407.1

Status: REVIEWED

Description

Transcript Variant: This variant (4) differs in the 5' UTR, compared to variant 1. Variants 1, 2, 3, 4, 5 and 6 encode the same isoform (a).

Source sequence(s)

AL543667, BC000389, BG752017, BM555783, BM755435

Consensus CDS

CCDS7721.1

UniProtKB/Swiss-Prot

O14817, Q6IAP6

UniProtKB/TrEMBL

J3KQ42

Related

ENSP00000380555.1, ENST00000397408.5

Conserved Domains (2) summary

cd03165
Location:105 → 202

NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...

pfam00335
Location:9 → 226

Tetraspannin; Tetraspanin family
NM_001025237.2 → NP_001020408.1 tetraspanin-4 isoform a

See identical proteins and their annotated locations for NP_001020408.1

Status: REVIEWED

Description

Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2, 3, 4, 5 and 6 encode the same isoform (a).

Source sequence(s)

AP006623, BC000389, BI820547, BM555783, BM755435

Consensus CDS

CCDS7721.1

UniProtKB/Swiss-Prot

O14817, Q6IAP6

UniProtKB/TrEMBL

J3KQ42

Related

ENSP00000380553.1, ENST00000397404.5

Conserved Domains (2) summary

cd03165
Location:105 → 202

NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...

pfam00335
Location:9 → 226

Tetraspannin; Tetraspanin family
NM_001025238.2 → NP_001020409.1 tetraspanin-4 isoform a

See identical proteins and their annotated locations for NP_001020409.1

Status: REVIEWED

Description

Transcript Variant: This variant (6) differs in the 5' UTR, compared to variant 1. Variants 1, 2, 3, 4, 5 and 6 encode the same isoform (a).

Source sequence(s)

BC000389, BM555783, BM755435

Consensus CDS

CCDS7721.1

UniProtKB/Swiss-Prot

O14817, Q6IAP6

UniProtKB/TrEMBL

J3KQ42

Related

ENSP00000380558.2, ENST00000397411.6

Conserved Domains (2) summary

cd03165
Location:105 → 202

NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...

pfam00335
Location:9 → 226

Tetraspannin; Tetraspanin family
NM_001025239.2 → NP_001020410.1 tetraspanin-4 isoform b

See identical proteins and their annotated locations for NP_001020410.1

Status: REVIEWED

Description

Transcript Variant: This variant (7) lacks an in-frame portion of the 5' coding region, compared to variant 1. The resulting isoform (b) has a shorter N-terminus when compared to isoform a.

Source sequence(s)

BC000389, BM555783, BM755435

Consensus CDS

CCDS41589.1

UniProtKB/TrEMBL

A8MVV6, B7WPM8

Related

ENSP00000380551.1, ENST00000397396.5

Conserved Domains (2) summary

cd03165
Location:41 → 138

NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...

pfam00335
Location:1 → 166

Tetraspannin; Tetraspanin family
NM_003271.5 → NP_003262.1 tetraspanin-4 isoform a

See identical proteins and their annotated locations for NP_003262.1

Status: REVIEWED

Description

Transcript Variant: This variant (5) differs in the 5' UTR, compared to variant 1. Variants 1, 2, 3, 4, 5 and 6 encode the same isoform (a).

Source sequence(s)

BC000389, BM555783, BM755435

Consensus CDS

CCDS7721.1

UniProtKB/Swiss-Prot

O14817, Q6IAP6

UniProtKB/TrEMBL

J3KQ42

Related

ENSP00000380552.2, ENST00000397397.7

Conserved Domains (2) summary

cd03165
Location:105 → 202

NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...

pfam00335
Location:9 → 226

Tetraspannin; Tetraspanin family

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

NC_000011.10 Reference GRCh38.p14 Primary Assembly

Range

842852..867111

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_011520341.3 → XP_011518643.1 tetraspanin-4 isoform X2

See identical proteins and their annotated locations for XP_011518643.1

UniProtKB/TrEMBL

A8MVV6, B7WPM8

Conserved Domains (2) summary

cd03165
Location:41 → 138

NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...

pfam00335
Location:1 → 166

Tetraspannin; Tetraspanin family
XM_011520338.2 → XP_011518640.1 tetraspanin-4 isoform X2

See identical proteins and their annotated locations for XP_011518640.1

UniProtKB/TrEMBL

A8MVV6, B7WPM8

Conserved Domains (2) summary

cd03165
Location:41 → 138

NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...

pfam00335
Location:1 → 166

Tetraspannin; Tetraspanin family
XM_011520339.3 → XP_011518641.1 tetraspanin-4 isoform X3

See identical proteins and their annotated locations for XP_011518641.1

Conserved Domains (2) summary

cd03165
Location:41 → 138

NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...

pfam00335
Location:33 → 166

Tetraspannin; Tetraspanin family
XM_011520337.3 → XP_011518639.1 tetraspanin-4 isoform X2

See identical proteins and their annotated locations for XP_011518639.1

UniProtKB/TrEMBL

A8MVV6, B7WPM8

Related

ENSP00000431943.1, ENST00000525201.5

Conserved Domains (2) summary

cd03165
Location:41 → 138

NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...

pfam00335
Location:1 → 166

Tetraspannin; Tetraspanin family
XM_005253102.2 → XP_005253159.1 tetraspanin-4 isoform X1

See identical proteins and their annotated locations for XP_005253159.1

UniProtKB/Swiss-Prot

O14817, Q6IAP6

UniProtKB/TrEMBL

J3KQ42

Related

ENSP00000386513.2, ENST00000409543.6

Conserved Domains (2) summary

cd03165
Location:105 → 202

NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...

pfam00335
Location:9 → 226

Tetraspannin; Tetraspanin family
XM_011520340.3 → XP_011518642.1 tetraspanin-4 isoform X2

See identical proteins and their annotated locations for XP_011518642.1

UniProtKB/TrEMBL

A8MVV6, B7WPM8

Conserved Domains (2) summary

cd03165
Location:41 → 138

NET-5_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model ...

pfam00335
Location:1 → 166

Tetraspannin; Tetraspanin family