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SERINC5 serine incorporator 5 [ Homo sapiens (human) ]

Gene ID: 256987, updated on 19-Jul-2021

Summary

Official Symbol
SERINC5provided by HGNC
Official Full Name
serine incorporator 5provided by HGNC
Primary source
HGNC:HGNC:18825
See related
Ensembl:ENSG00000164300 MIM:614551
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
TPO1; C5orf12
Expression
Broad expression in testis (RPKM 21.2), colon (RPKM 21.1) and 24 other tissues See more
Orthologs
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Genomic context

See SERINC5 in Genome Data Viewer
Location:
5q14.1
Exon count:
17
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 5 NC_000005.10 (80111225..80256048, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (79407048..79551867, complement)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene thrombospondin 4 Neighboring gene tRNA methyltransferase subunit 11-2 pseudogene 2 Neighboring gene THBS4 antisense RNA 1 Neighboring gene Sharpr-MPRA regulatory region 10230 Neighboring gene keratin 18 pseudogene 45 Neighboring gene actin beta pseudogene

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

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Genome-wide analyses of borderline personality features.
GeneReviews: Not available

HIV-1 interactions

Replication interactions

Interaction Pubs
HIV-1 Nef deleted virus is restricted by SERINC5 at an early step in viral replication PubMed
HIV-1 infection (VSV-G pseudotyped) of CEMT4 T cells downregulates plasma membrane expression of SERINC5 PubMed
HIV-1 Nef deleted virus replication is restricted by both SERINC3 and SERINC5 (combined effect of SERINC3 and SERINC5 noted) PubMed
HIV-1 Nef deleted virus is restricted by SERINC5; CRISPR-Cas9 knockout of SERINC5 in cells producing HIV-1 Nef deleted virus enhances the infectivity HIV-1 Nef deleted virus of subsequent target cells PubMed

Protein interactions

Protein Gene Interaction Pubs
Nef nef HIV-1 Nef antagonizes SERINC5 incorporation into virions PubMed
nef HIV-1 (SF2) Nef antagonizes SERINC5-mediated antiviral restriction which depends on Nef dileucine, diacidic, and CAW motifs and amino acids 12-39 PubMed
nef HIV-1 Nef counteracts restriction of HIV-1 replication by SERINC3 and SERINC5 PubMed
nef HIV-1 Nef relocalizes SERINC5 to Rab7-positive endosomal compartments and prevents SERINC5 incorporation into virions PubMed
nef HIV-1 Nef downregulates SERINC5 expression on cell surface which, consequently, prevents incorporation of this protein into virions to an extent that correlates with infectivity enhancement PubMed
nef HIV-1 Nef antagonizes SERINC5-mediated antiviral restriction in CEMT4 T cells PubMed
nef HIV-1 Nef downregulates cell (CEMT4) surface expression of SERINC5 PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables L-serine transmembrane transporter activity TAS
Traceable Author Statement
more info
 
Process Evidence Code Pubs
involved_in L-serine biosynthetic process TAS
Traceable Author Statement
more info
 
involved_in L-serine transport IEA
Inferred from Electronic Annotation
more info
 
involved_in defense response to virus IDA
Inferred from Direct Assay
more info
PubMed 
involved_in detection of virus IDA
Inferred from Direct Assay
more info
PubMed 
involved_in innate immune response IDA
Inferred from Direct Assay
more info
PubMed 
involved_in myelination IEA
Inferred from Electronic Annotation
more info
 
involved_in phosphatidylserine metabolic process ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in phospholipid biosynthetic process IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of CDP-diacylglycerol-serine O-phosphatidyltransferase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of serine C-palmitoyltransferase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in sphingolipid metabolic process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in Golgi apparatus IEA
Inferred from Electronic Annotation
more info
 
located_in centrosome IDA
Inferred from Direct Assay
more info
 
located_in cytosol IDA
Inferred from Direct Assay
more info
 
located_in extracellular exosome HDA PubMed 
located_in integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
located_in intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
 
is_active_in membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in myelin sheath IEA
Inferred from Electronic Annotation
more info
 
located_in perinuclear region of cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in plasma membrane TAS
Traceable Author Statement
more info
 

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_001174071.3NP_001167542.1  serine incorporator 5 isoform 3

    See identical proteins and their annotated locations for NP_001167542.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate splice pattern in the 3' coding region and 3' UTR, compared to variant 1. The resulting isoform (3) has a shorter and distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AC010260, AC012636, AF498273, BC101283
    Consensus CDS
    CCDS83009.1
    UniProtKB/Swiss-Prot
    Q86VE9
    Related
    ENSP00000426134.2, ENST00000509193.5
    Conserved Domains (1) summary
    pfam03348
    Location:13413
    Serinc; Serine incorporator (Serinc)
  2. NM_001174072.3NP_001167543.1  serine incorporator 5 isoform 1

    See identical proteins and their annotated locations for NP_001167543.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AC010260, AK297467, BU681476
    Consensus CDS
    CCDS54874.1
    UniProtKB/Swiss-Prot
    Q86VE9
    Related
    ENSP00000426237.3, ENST00000507668.7
    Conserved Domains (1) summary
    pfam03348
    Location:13458
    Serinc; Serine incorporator (Serinc)
  3. NM_178276.7NP_840060.1  serine incorporator 5 isoform 2

    See identical proteins and their annotated locations for NP_840060.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate splice pattern in the 3' coding region and 3' UTR, compared to variant 1. The resulting isoform (2) has a shorter and distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AC010260, AC012636, AF498273
    UniProtKB/Swiss-Prot
    Q86VE9
    Conserved Domains (1) summary
    pfam03348
    Location:13413
    Serinc; Serine incorporator (Serinc)

RNA

  1. NR_126060.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) uses an alternate splice site in the central region and contains alternate 3' exon structure, compared to variant 1. This variant is represented as non-coding because the use of the expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC010260, AC012636, AF498273, BC101282
  2. NR_126061.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) contains alternate 3' exon structure, compared to variant 1. This variant is represented as non-coding because the use of the expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC010260, AC012636, AF498273, BC101281

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000005.10 Reference GRCh38.p13 Primary Assembly

    Range
    80111225..80256048 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011543304.1XP_011541606.1  serine incorporator 5 isoform X1

    Conserved Domains (1) summary
    pfam03348
    Location:13413
    Serinc; Serine incorporator (Serinc)
  2. XM_024446013.1XP_024301781.1  serine incorporator 5 isoform X3

    Conserved Domains (1) summary
    pfam03348
    Location:30187
    Serinc; Serine incorporator (Serinc)
  3. XM_017009323.1XP_016864812.1  serine incorporator 5 isoform X2

  4. XM_017009324.1XP_016864813.1  serine incorporator 5 isoform X2

  5. XM_017009326.2XP_016864815.1  serine incorporator 5 isoform X4

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