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SNX31 sorting nexin 31 [ Homo sapiens (human) ]

Gene ID: 169166, updated on 11-Apr-2024

Summary

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Official Symbol
SNX31provided by HGNC
Official Full Name
sorting nexin 31provided by HGNC
Primary source
HGNC:HGNC:28605
See related
Ensembl:ENSG00000174226 MIM:619839; AllianceGenome:HGNC:28605
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
Summary
Predicted to enable phosphatidylinositol binding activity. Predicted to be involved in intracellular protein transport. Predicted to be located in cytoskeleton. Predicted to be part of protein-containing complex. Predicted to be active in early endosome. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in urinary bladder (RPKM 11.1), esophagus (RPKM 2.0) and 2 other tissues See more
Orthologs
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Genomic context

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Location:
8q22.3
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (100572874..100663585, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (101698913..101789632, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (101585102..101661893, complement)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124901992 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr8:101499786-101500985 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:101503341-101504286 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27704 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27705 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27706 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27707 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27708 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancers GRCh37_chr8:101506997-101507937 and GRCh37_chr8:101507938-101508879 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr8:101508880-101509820 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:101511587-101512088 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:101512089-101512588 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19417 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27710 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:101522255-101522840 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27711 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19418 Neighboring gene ankyrin repeat domain 46 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27712 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27713 Neighboring gene MPRA-validated peak7124 silencer Neighboring gene Sharpr-MPRA regulatory region 13822 Neighboring gene glyceraldehyde 3 phosphate dehydrogenase pseudogene 62 Neighboring gene uncharacterized LOC105375671 Neighboring gene uncharacterized LOC105375672 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr8:101679632-101680242 Neighboring gene RNA, U6 small nuclear 1092, pseudogene Neighboring gene microRNA 7705 Neighboring gene poly(A) binding protein cytoplasmic 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Lack of deleterious somatic mutations in the CD95 gene of plasmablasts from systemic lupus erythematosus patients and autoantibody-producing cell lines. Kurth J, et al. Eur J Immunol, 2002 Dec. PMID 12516573
  2. SNX31: a novel sorting nexin associated with the uroplakin-degrading multivesicular bodies in terminally differentiated urothelial cells. Vieira N, et al. PLoS One, 2014. PMID 24914955, Free PMC Article
  3. The Phox (PX) domain proteins and membrane traffic. Seet LF, et al. Biochim Biophys Acta, 2006 Aug. PMID 16782399
  4. Retriever is a multiprotein complex for retromer-independent endosomal cargo recycling. McNally KE, et al. Nat Cell Biol, 2017 Oct. PMID 28892079, Free PMC Article
  5. Genome-wide shRNA screening identifies host factors involved in early endocytic events for HIV-1-induced CD4 down-regulation. Landi A, et al. Retrovirology, 2014 Dec 13. PMID 25496667, Free PMC Article

See all (16) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
    Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
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)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Nef nef Genome-wide shRNA screening identifies SNX31, 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

Homology

Clone Names

  • MGC39715

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables phosphatidylinositol 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 endocytic recycling IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in intracellular protein transport IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in early endosome IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of protein-containing complex IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
sorting nexin-31

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_001363720.1 → NP_001350649.1  sorting nexin-31 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AK093906, AP000424, AP001205, BC031260, DB312716
    Consensus CDS
    CCDS87622.1
    Related
    ENSP00000405024.2, ENST00000428383.6
    Conserved Domains (2) summary
    cd13336
    Location:171 → 285
    FERM-like_C_SNX31; Atypical FERM-like domain C-lobe of Sorting nexin 31
    cl09511
    Location:22 → 152
    FERM_B-lobe; FERM domain B-lobe

  2. NM_152628.4 → NP_689841.3  sorting nexin-31 isoform 1

    See identical proteins and their annotated locations for NP_689841.3

    Status: VALIDATED

    Source sequence(s)
    AK093906, AP001205, BQ012274, CD106024
    Consensus CDS
    CCDS6288.1
    UniProtKB/Swiss-Prot
    C9J6L9, Q8N0U9, Q8N9S9
    Related
    ENSP00000312368.2, ENST00000311812.7
    Conserved Domains (3) summary
    cd06885
    Location:4 → 106
    PX_SNX17_31; The phosphoinositide binding Phox Homology domain of Sorting Nexins 17 and 31
    cd13336
    Location:270 → 384
    FERM-like_C_SNX31; Atypical FERM-like domain C-lobe of Sorting nexin 31
    cl00155
    Location:119 → 204
    UBQ; Ubiquitin-like proteins

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_000008.11 Reference GRCh38.p14 Primary Assembly

    Range
    100572874..100663585 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011516899.2 → XP_011515201.1  sorting nexin-31 isoform X8

    Conserved Domains (3) summary
    cd13336
    Location:204 → 318
    FERM-like_C_SNX31; Atypical FERM-like domain C-lobe of Sorting nexin 31
    cl00155
    Location:53 → 138
    UBQ; Ubiquitin-like proteins
    cl02563
    Location:1 → 40
    PX_domain; The Phox Homology domain, a phosphoinositide binding module

  2. XM_024447085.2 → XP_024302853.1  sorting nexin-31 isoform X12

    Conserved Domains (2) summary
    cd06885
    Location:4 → 106
    PX_SNX17_31; The phosphoinositide binding Phox Homology domain of Sorting Nexins 17 and 31
    cd13336
    Location:187 → 301
    FERM-like_C_SNX31; Atypical FERM-like domain C-lobe of Sorting nexin 31

  3. XM_017013161.2 → XP_016868650.1  sorting nexin-31 isoform X10

  4. XM_017013162.2 → XP_016868651.1  sorting nexin-31 isoform X13

  5. XM_017013160.2 → XP_016868649.1  sorting nexin-31 isoform X9

  6. XM_017013159.2 → XP_016868648.1  sorting nexin-31 isoform X7

  7. XM_017013158.2 → XP_016868647.1  sorting nexin-31 isoform X6

  8. XM_017013157.2 → XP_016868646.1  sorting nexin-31 isoform X5

  9. XM_017013156.2 → XP_016868645.1  sorting nexin-31 isoform X4

  10. XM_017013154.2 → XP_016868643.1  sorting nexin-31 isoform X1

  11. XM_017013163.2 → XP_016868652.1  sorting nexin-31 isoform X15

  12. XM_024447086.2 → XP_024302854.1  sorting nexin-31 isoform X14

    Conserved Domains (2) summary
    cl09511
    Location:22 → 152
    FERM_B-lobe; FERM domain B-lobe
    cl17171
    Location:171 → 247
    PH-like; Pleckstrin homology-like domain

  13. XM_024447084.2 → XP_024302852.1  sorting nexin-31 isoform X11

    Conserved Domains (2) summary
    cd13336
    Location:171 → 285
    FERM-like_C_SNX31; Atypical FERM-like domain C-lobe of Sorting nexin 31
    cl09511
    Location:22 → 152
    FERM_B-lobe; FERM domain B-lobe

  14. XM_017013155.1 → XP_016868644.1  sorting nexin-31 isoform X3

  15. XM_017013153.1 → XP_016868642.1  sorting nexin-31 isoform X2

  16. XM_017013165.1 → XP_016868654.1  sorting nexin-31 isoform X16

  17. XM_017013164.1 → XP_016868653.1  sorting nexin-31 isoform X16

  18. XM_047421413.1 → XP_047277369.1  sorting nexin-31 isoform X16

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    101698913..101789632 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054359891.1 → XP_054215866.1  sorting nexin-31 isoform X8

  2. XM_054359895.1 → XP_054215870.1  sorting nexin-31 isoform X12

  3. XM_054359893.1 → XP_054215868.1  sorting nexin-31 isoform X10

  4. XM_054359896.1 → XP_054215871.1  sorting nexin-31 isoform X13

  5. XM_054359892.1 → XP_054215867.1  sorting nexin-31 isoform X9

  6. XM_054359890.1 → XP_054215865.1  sorting nexin-31 isoform X7

  7. XM_054359889.1 → XP_054215864.1  sorting nexin-31 isoform X6

  8. XM_054359888.1 → XP_054215863.1  sorting nexin-31 isoform X5

  9. XM_054359887.1 → XP_054215862.1  sorting nexin-31 isoform X4

  10. XM_054359884.1 → XP_054215859.1  sorting nexin-31 isoform X1

  11. XM_054359898.1 → XP_054215873.1  sorting nexin-31 isoform X15

  12. XM_054359897.1 → XP_054215872.1  sorting nexin-31 isoform X14

  13. XM_054359894.1 → XP_054215869.1  sorting nexin-31 isoform X11

  14. XM_054359886.1 → XP_054215861.1  sorting nexin-31 isoform X3

  15. XM_054359885.1 → XP_054215860.1  sorting nexin-31 isoform X2

  16. XM_054359900.1 → XP_054215875.1  sorting nexin-31 isoform X16

  17. XM_054359899.1 → XP_054215874.1  sorting nexin-31 isoform X16

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8N9S9.3 GenPept UniProtKB/Swiss-Prot:Q8N9S9

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