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SYS1 SYS1 golgi trafficking protein [ Homo sapiens (human) ]

Gene ID: 90196, updated on 2-Nov-2024

Summary

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Official Symbol
SYS1provided by HGNC
Official Full Name
SYS1 golgi trafficking proteinprovided by HGNC
Primary source
HGNC:HGNC:16162
See related
Ensembl:ENSG00000204070 MIM:612979; AllianceGenome:HGNC:16162
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
C20orf169; dJ453C12.4; dJ453C12.4.1
Summary
SYS1 forms a complex with ADP-ribosylation factor-related protein ARFRP1 (MIM 604699) and targets ARFRP1 to the Golgi apparatus (Behnia et al., 2004 [PubMed 15077113]).[supplied by OMIM, Aug 2009]
Expression
Ubiquitous expression in thyroid (RPKM 8.9), ovary (RPKM 6.7) and 25 other tissues See more
Orthologs
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Genomic context

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See SYS1 in Genome Data Viewer
Location:
20q13.12
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (45361949..45376798)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (47097832..47112667)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (43990589..44005438)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene tRNA-Val (anticodon CAC) 14-1 Neighboring gene syndecan 4 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:43971073-43971967 Neighboring gene uncharacterized LOC124904914 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17947 Neighboring gene SYS1-DBNDD2 readthrough (NMD candidate) Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17948 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12957 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17949 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17950 Neighboring gene TP53 target 5 Neighboring gene NADH:ubiquinone oxidoreductase subunit B4 pseudogene 10 Neighboring gene uncharacterized LOC107985404 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:44035517-44036066 Neighboring gene dysbindin domain containing 2

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 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. Targeting of the Arf-like GTPase Arl3p to the Golgi requires N-terminal acetylation and the membrane protein Sys1p. Behnia R, et al. Nat Cell Biol, 2004 May. PMID 15077113
  2. A Novel Interacting Protein SERP1 Regulates the N-Linked Glycosylation and Function of GLP-1 Receptor in the Liver. Xiao Y, et al. J Cell Biochem, 2017 Nov. PMID 28597972
  3. Comparative Host Interactomes of the SARS-CoV-2 Nonstructural Protein 3 and Human Coronavirus Homologs. Almasy KM, et al. Mol Cell Proteomics, 2021. PMID 34186245, Free PMC Article
  4. Signal sequence and keyword trap in silico for selection of full-length human cDNAs encoding secretion or membrane proteins from oligo-capped cDNA libraries. Otsuki T, et al. DNA Res, 2005. PMID 16303743
  5. Receptor-mediated clustering of FIP200 bypasses the role of LC3 lipidation in autophagy. Ohnstad AE, et al. EMBO J, 2020 Dec 15. PMID 33226137, Free PMC Article

See all (14) citations in PubMed

GeneRIFs: Gene References Into Functions

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

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Readthrough SYS1-DBNDD2

Readthrough gene: SYS1-DBNDD2, Included gene: DBNDD2

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in Golgi to endosome transport IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in Golgi to plasma membrane protein transport IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in protein localization to Golgi apparatus IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in Golgi membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
is_active_in trans-Golgi network IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in trans-Golgi network membrane TAS
Traceable Author Statement
more info
  

General protein information

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Preferred Names
protein SYS1 homolog
Names
SYS1 Golgi-localized integral membrane protein homolog

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_001099791.3 → NP_001093261.1  protein SYS1 homolog isoform b

    See identical proteins and their annotated locations for NP_001093261.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate 3' exon and thus differs in the 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (b) has a distinct and shorter C-terminus, compared to isoform a.
    Source sequence(s)
    AK172738, AL021578, H09823
    Consensus CDS
    CCDS56192.1
    UniProtKB/Swiss-Prot
    Q8N2H4
    Related
    ENSP00000416506.1, ENST00000426004.5
    Conserved Domains (1) summary
    pfam09801
    Location:5 → 76
    SYS1; Integral membrane protein S linking to the trans Golgi network

  2. NM_001197129.2 → NP_001184058.1  protein SYS1 homolog isoform a

    See identical proteins and their annotated locations for NP_001184058.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Both variants 1 and 3 encode the same isoform (a).
    Source sequence(s)
    AL591714, BI820996
    Consensus CDS
    CCDS13351.1
    UniProtKB/Swiss-Prot
    C9JFB3, E1P620, Q5QPU7, Q8N2H4, Q96SD8, Q9BQZ2, Q9BQZ4, Q9H1F7
    Related
    ENSP00000361812.1, ENST00000372727.5
    Conserved Domains (1) summary
    pfam09801
    Location:5 → 148
    SYS1; Integral membrane protein S linking to the trans Golgi network

  3. NM_033542.4 → NP_291020.1  protein SYS1 homolog isoform a

    See identical proteins and their annotated locations for NP_291020.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant encodes the longer isoform (a). Both variants 1 and 3 encode the same isoform.
    Source sequence(s)
    AL591714, DA526637
    Consensus CDS
    CCDS13351.1
    UniProtKB/Swiss-Prot
    C9JFB3, E1P620, Q5QPU7, Q8N2H4, Q96SD8, Q9BQZ2, Q9BQZ4, Q9H1F7
    Related
    ENSP00000243918.5, ENST00000243918.10
    Conserved Domains (1) summary
    pfam09801
    Location:5 → 148
    SYS1; Integral membrane protein S linking to the trans Golgi network

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

  1. NC_000020.11 Reference GRCh38.p14 Primary Assembly

    Range
    45361949..45376798
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060944.1 Alternate T2T-CHM13v2.0

    Range
    47097832..47112667
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8N2H4.1 GenPept UniProtKB/Swiss-Prot:Q8N2H4

Gene LinkOut

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