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

Gene ID: 90196, updated on 24-Nov-2020

Summary

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
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

Genomic context

See SYS1 in Genome Data Viewer
Location:
20q13.12
Exon count:
6
Annotation release Status Assembly Chr Location
109.20201120 current GRCh38.p13 (GCF_000001405.39) 20 NC_000020.11 (45361949..45376798)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (43988660..44005442)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene tRNA-Val (anticodon CAC) 14-1 Neighboring gene syndecan 4 Neighboring gene SYS1-DBNDD2 readthrough (NMD candidate) Neighboring gene TP53 target 5 Neighboring gene NADH:ubiquinone oxidoreductase subunit B4 pseudogene 10 Neighboring gene uncharacterized LOC107985404 Neighboring gene dysbindin domain containing 2

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Readthrough SYS1-DBNDD2

Readthrough gene: SYS1-DBNDD2, Included gene: DBNDD2

Homology

Gene Ontology Provided by GOA

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

General protein information

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

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_001099791.3NP_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:576
    SYS1; Integral membrane protein S linking to the trans Golgi network
  2. NM_001197129.2NP_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
    Q8N2H4
    Related
    ENSP00000361812.1, ENST00000372727.5
    Conserved Domains (1) summary
    pfam09801
    Location:5148
    SYS1; Integral membrane protein S linking to the trans Golgi network
  3. NM_033542.4NP_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
    Q8N2H4
    Related
    ENSP00000243918.5, ENST00000243918.10
    Conserved Domains (1) summary
    pfam09801
    Location:5148
    SYS1; Integral membrane protein S linking to the trans Golgi network

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20201120

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