U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

TMEM39A transmembrane protein 39A [ Homo sapiens (human) ]

Gene ID: 55254, updated on 8-Dec-2022

Summary

Official Symbol
TMEM39Aprovided by HGNC
Official Full Name
transmembrane protein 39Aprovided by HGNC
Primary source
HGNC:HGNC:25600
See related
Ensembl:ENSG00000176142 AllianceGenome:HGNC:25600
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
SUSR2
Summary
Involved in negative regulation of autophagosome assembly; negative regulation of autophagosome maturation; and positive regulation of viral genome replication. Located in endoplasmic reticulum membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in thyroid (RPKM 7.9), placenta (RPKM 6.8) and 25 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See TMEM39A in Genome Data Viewer
Location:
3q13.33
Exon count:
11
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (119428949..119463615, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (122148660..122183326, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (119147796..119182462, complement)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene Rho GTPase activating protein 31 Neighboring gene RNA, U6 small nuclear 1127, pseudogene Neighboring gene uncharacterized LOC124906273 Neighboring gene protein O-glucosyltransferase 1 Neighboring gene translocase of inner mitochondrial membrane domain containing 1 Neighboring gene CD80 molecule

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

EBI GWAS Catalog

Description
Genetic risk and a primary role for cell-mediated immune mechanisms in multiple sclerosis.
EBI GWAS Catalog
Genome-wide association study of plasma N6 polyunsaturated fatty acids within the cohorts for heart and aging research in genomic epidemiology consortium.
EBI GWAS Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ10902, FLJ34745

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
is_active_in endoplasmic reticulum membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in endoplasmic reticulum membrane IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
transmembrane protein 39A
Names
suppressor of SQST-1 aggregates in rpl-43 mutants

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_018266.3NP_060736.1  transmembrane protein 39A

    See identical proteins and their annotated locations for NP_060736.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the shorter transcript and encodes the functional protein.
    Source sequence(s)
    AC074271, AK001764, BC003192
    Consensus CDS
    CCDS2987.1
    UniProtKB/Swiss-Prot
    Q6PKB5, Q9NV64
    Related
    ENSP00000326063.5, ENST00000319172.10
    Conserved Domains (1) summary
    pfam10271
    Location:42477
    Tmp39; Putative transmembrane protein

RNA

  1. NR_073506.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) contains an alternate internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC074271, BC003192
    Related
    ENST00000438581.6

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    119428949..119463615 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047448511.1XP_047304467.1  transmembrane protein 39A isoform X2

  2. XM_047448512.1XP_047304468.1  transmembrane protein 39A isoform X3

  3. XM_006713687.3XP_006713750.1  transmembrane protein 39A isoform X1

    See identical proteins and their annotated locations for XP_006713750.1

    UniProtKB/Swiss-Prot
    Q6PKB5, Q9NV64
    Conserved Domains (1) summary
    pfam10271
    Location:42477
    Tmp39; Putative transmembrane protein
  4. XM_047448513.1XP_047304469.1  transmembrane protein 39A isoform X4

  5. XM_017006788.3XP_016862277.1  transmembrane protein 39A isoform X2

    Conserved Domains (1) summary
    pfam10271
    Location:42449
    Tmp39; Putative transmembrane protein
  6. XM_005247578.3XP_005247635.1  transmembrane protein 39A isoform X3

    Conserved Domains (1) summary
    pfam10271
    Location:42371
    Tmp39; Putative transmembrane protein
  7. XM_011512958.4XP_011511260.1  transmembrane protein 39A isoform X5

    Conserved Domains (1) summary
    pfam10271
    Location:42313
    Tmp39; Putative transmembrane protein

RNA

  1. XR_007095705.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    122148660..122183326 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)