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SNX21 sorting nexin family member 21 [ Homo sapiens (human) ]

Gene ID: 90203, updated on 17-Jun-2019

Summary

Official Symbol
SNX21provided by HGNC
Official Full Name
sorting nexin family member 21provided by HGNC
Primary source
HGNC:HGNC:16154
See related
Ensembl:ENSG00000124104
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
SNX-L; PP3993; C20orf161; dJ337O18.4
Summary
This gene encodes a member of the sorting nexin family. Members of this family contain a phox (PX) domain, which is a phosphoinositide binding domain, and are involved in intracellular trafficking. This protein does not contain a coiled coil region, like some family members. The specific function of this protein has not been determined. Multiple transcript variants encoding distinct isoforms have been identified for this gene. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in skin (RPKM 12.2), fat (RPKM 8.5) and 24 other tissues See more
Orthologs

Genomic context

See SNX21 in Genome Data Viewer
Location:
20q13.12
Exon count:
8
Annotation release Status Assembly Chr Location
109.20190607 current GRCh38.p13 (GCF_000001405.39) 20 NC_000020.11 (45833418..45843276)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (44462256..44471914)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene ubiquitin conjugating enzyme E2 C Neighboring gene troponin C2, fast skeletal type Neighboring gene acyl-CoA thioesterase 8 Neighboring gene zinc finger SWIM-type containing 3 Neighboring gene zinc finger SWIM-type containing 1

Genomic regions, transcripts, and products

Expression

  • 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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC29895

Gene Ontology Provided by GOA

Function Evidence Code Pubs
phosphatidylinositol-3-phosphate binding ISS
Inferred from Sequence or Structural Similarity
more info
 
phosphatidylinositol-4,5-bisphosphate binding ISS
Inferred from Sequence or Structural Similarity
more info
 
Process Evidence Code Pubs
protein transport IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cytoplasmic vesicle membrane IEA
Inferred from Electronic Annotation
more info
 
early endosome membrane ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
sorting nexin-21
Names
sorting nexin L

NCBI Reference Sequences (RefSeq)

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_001042632.3NP_001036097.1  sorting nexin-21 isoform c

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site in the coding region, compared to variant 1, that results in a frameshift. The resulting isoform (c) has a shorter and distinct C-terminus that lacks a PX domain, compared to isoform a.
    Source sequence(s)
    AK095851, AL008726, BC012904, KF456922
    UniProtKB/TrEMBL
    Q05DJ0, Q8WY78
    Conserved Domains (1) summary
    cl02563
    Location:131146
    PX_domain; The Phox Homology domain, a phosphoinositide binding module
  2. NM_001042633.3NP_001036098.1  sorting nexin-21 isoform d

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) includes an alternate exon in the 3' coding region, compared to variant 1, that results in a frameshift. The resulting isoform (d) has a shorter and distinct C-terminus that lacks a PX domain, compared to isoform a.
    Source sequence(s)
    AL008726, BM925584, DA053179, KF456922
    Consensus CDS
    CCDS42883.1
    UniProtKB/TrEMBL
    A0A0S2Z632
    Related
    ENSP00000420169.1, ENST00000462307.5
    Conserved Domains (1) summary
    cl02563
    Location:131149
    PX_domain; The Phox Homology domain, a phosphoinositide binding module
  3. NM_033421.4NP_219489.1  sorting nexin-21 isoform a

    See identical proteins and their annotated locations for NP_219489.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform a.
    Source sequence(s)
    AL008726, KF456922
    Consensus CDS
    CCDS13377.1
    UniProtKB/Swiss-Prot
    Q969T3
    Related
    ENSP00000418593.1, ENST00000491381.6
    Conserved Domains (3) summary
    cd07301
    Location:131242
    PX_SNX21; The phosphoinositide binding Phox Homology domain of Sorting Nexin 21
    sd00006
    Location:244268
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:247312
    TPR_12; Tetratricopeptide repeat
  4. NM_152897.3NP_690857.1  sorting nexin-21 isoform b

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks a segment of the coding region, which leads to a frameshift, compared to variant 1. The resulting isoform (b) has a shorter and distinct C-terminus that lacks a PX domain, compared to isoform a.
    Source sequence(s)
    AL008726, KF456922
    Consensus CDS
    CCDS13376.1
    UniProtKB/Swiss-Prot
    Q969T3
    Related
    ENSP00000344586.5, ENST00000342644.9
    Conserved Domains (1) summary
    cl02563
    Location:131196
    PX_domain; The Phox Homology domain, a phosphoinositide binding module

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000020.11 Reference GRCh38.p13 Primary Assembly

    Range
    45833418..45843276
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011529098.2XP_011527400.1  sorting nexin-21 isoform X4

    See identical proteins and their annotated locations for XP_011527400.1

    Conserved Domains (1) summary
    cl02563
    Location:131149
    PX_domain; The Phox Homology domain, a phosphoinositide binding module
  2. XM_011529096.2XP_011527398.1  sorting nexin-21 isoform X3

    Related
    ENSP00000478395.1, ENST00000614929.4
    Conserved Domains (2) summary
    pfam13900
    Location:161184
    GVQW; Putative domain of unknown function
    cl02563
    Location:131147
    PX_domain; The Phox Homology domain, a phosphoinositide binding module
  3. XM_011529095.2XP_011527397.1  sorting nexin-21 isoform X2

    Conserved Domains (3) summary
    sd00006
    Location:96120
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:99164
    TPR_12; Tetratricopeptide repeat
    cl02563
    Location:194
    PX_domain; The Phox Homology domain, a phosphoinositide binding module
  4. XM_005260608.4XP_005260665.1  sorting nexin-21 isoform X1

    Conserved Domains (3) summary
    sd00006
    Location:146170
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:149214
    TPR_12; Tetratricopeptide repeat
    cl02563
    Location:37144
    PX_domain; The Phox Homology domain, a phosphoinositide binding module
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