SNX22 sorting nexin 22 [Homo sapiens (human)] - Gene

Summary

Official Symbol: SNX22provided by HGNC
Official Full Name: sorting nexin 22provided by HGNC
Primary source: HGNC:HGNC:16315
See related: Ensembl:ENSG00000157734 AllianceGenome:HGNC:16315
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
Summary: The protein encoded by this gene is a sorting nexin that is found in the cytoplasm, where it interacts with membrane-bound phosphatidylinositol 3-phosphate. The encoded protein may play a role in intracellular trafficking. Two transcript variants, one protein-coding and the other not protein-coding, have been found for this gene. [provided by RefSeq, Dec 2012]
Expression: Ubiquitous expression in thyroid (RPKM 48.1), placenta (RPKM 36.5) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 15q22.31

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	15	NC_000015.10 (64151731..64157481)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	15	NC_060939.1 (61958907..61964657)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	15	NC_000015.9 (64443930..64449680)

Chromosome 15 - NC_000015.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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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?

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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
Nef	nef	Genome-wide shRNA screening identifies SNX22, which is required for HIV-1 Nef-induced downregulation of CD4 in HeLa CD4+ cells	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

D8S2279 (e-PCR)
- UniSTS:473907

RH91503 (e-PCR)
- UniSTS:85813

RH98542 (e-PCR)
- UniSTS:87888

D15S1477 (e-PCR)
- UniSTS:474482

RH103326 (e-PCR)
- UniSTS:97657

RH80030 (e-PCR)
- UniSTS:87680

D11S3114 (e-PCR)
- UniSTS:152207

WI-9117 (e-PCR)
- UniSTS:32161

AF044685 (e-PCR)
- UniSTS:43965

MARC_23668-23669:1029507689:1 (e-PCR)
- UniSTS:268742

D15S1174 (e-PCR)
- UniSTS:61138

GDB:631802 (e-PCR)
- UniSTS:158429

RH45047 (e-PCR)
- UniSTS:15343

Gene Ontology Provided by GOA

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

Process	Evidence Code	Pubs
involved_in protein transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytoplasmic vesicle membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: sorting nexin-22

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_033071.1 RefSeqGene

Range

5015..10765

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_024798.3 → NP_079074.2 sorting nexin-22

See identical proteins and their annotated locations for NP_079074.2

Status: REVIEWED

Description

Transcript Variant: This variant (1) represents the protein-coding transcript.

Source sequence(s)

AC100840, AK024014

Consensus CDS

CCDS10190.1

UniProtKB/Swiss-Prot

Q8WUS9, Q96L94, Q9H844

Related

ENSP00000323435.4, ENST00000325881.9

Conserved Domains (1) summary

cd06880
Location:2 → 116

PX_SNX22; The phosphoinositide binding Phox Homology domain of Sorting Nexin 22

RNA

NR_073534.2 RNA Sequence

Status: REVIEWED

Description

Transcript Variant: This variant (2) uses an alternate splice junction at the 3' end of a coding exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).

Source sequence(s)

AC100840, AK024014, BC019655