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TRIM38 tripartite motif containing 38 [ Homo sapiens (human) ]

Gene ID: 10475, updated on 7-Jun-2020

Summary

Official Symbol
TRIM38provided by HGNC
Official Full Name
tripartite motif containing 38provided by HGNC
Primary source
HGNC:HGNC:10059
See related
Ensembl:ENSG00000112343
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
RNF15; RORET
Summary
This gene encodes a member of the tripartite motif (TRIM) family. The encoded protein contains a RING-type zinc finger, B box-type zinc finger and SPRY domain. The function of this protein has not been identified. A pseudogene of this gene is located on the long arm of chromosome 4. [provided by RefSeq, Jul 2012]
Expression
Ubiquitous expression in spleen (RPKM 9.0), lymph node (RPKM 8.4) and 24 other tissues See more
Orthologs

Genomic context

See TRIM38 in Genome Data Viewer
Location:
6p22.2
Exon count:
11
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 6 NC_000006.12 (25962723..25991231)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (25962917..25987557)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene solute carrier family 17 member 2 Neighboring gene CRISPRi-validated cis-regulatory element chr6.1077 Neighboring gene H3 histone pseudogene 26 Neighboring gene H1.1 linker histone, cluster member

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

Phenotypes

NHGRI GWAS Catalog

Description
Hypertrophy-associated polymorphisms ascertained in a founder cohort applied to heart failure risk and mortality.
NHGRI GWA Catalog
Variants in TF and HFE explain approximately 40% of genetic variation in serum-transferrin levels.
NHGRI GWA Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC8946

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein homodimerization activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein kinase binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ubiquitin protein ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
innate immune response IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
interferon-gamma-mediated signaling pathway TAS
Traceable Author Statement
more info
 
negative regulation of defense response to virus IEA
Inferred from Electronic Annotation
more info
 
positive regulation of DNA-binding transcription factor activity IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of I-kappaB kinase/NF-kappaB signaling HMP PubMed 
positive regulation of I-kappaB kinase/NF-kappaB signaling IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of I-kappaB kinase/NF-kappaB signaling IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of NF-kappaB transcription factor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of NF-kappaB transcription factor activity IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of autophagy IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of viral entry into host cell IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of viral genome replication IEA
Inferred from Electronic Annotation
more info
 
proteasome-mediated ubiquitin-dependent protein catabolic process IEA
Inferred from Electronic Annotation
more info
 
protein K48-linked ubiquitination IEA
Inferred from Electronic Annotation
more info
 
protein polyubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein ubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of gene expression IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of interferon-beta production IEA
Inferred from Electronic Annotation
more info
 
regulation of protein localization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of viral entry into host cell IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
cellular_component ND
No biological Data available
more info
 
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
E3 ubiquitin-protein ligase TRIM38
Names
RING-type E3 ubiquitin transferase TRIM38
Ro/SSA ribonucleoprotein homolog
ring finger protein 15
tripartite motif-containing protein 38
zinc finger protein RoRet
NP_006346.1
XP_005248856.1
XP_005248857.1
XP_016865664.1
XP_024302071.1

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_006355.5NP_006346.1  E3 ubiquitin-protein ligase TRIM38

    See identical proteins and their annotated locations for NP_006346.1

    Status: REVIEWED

    Source sequence(s)
    AK313248, KC877159, U91328
    Consensus CDS
    CCDS4568.1
    UniProtKB/Swiss-Prot
    O00635
    UniProtKB/TrEMBL
    A0A024QZY4
    Related
    ENSP00000349596.2, ENST00000357085.5
    Conserved Domains (3) summary
    smart00336
    Location:88129
    BBOX; B-Box-type zinc finger
    cd15815
    Location:280461
    SPRY_PRY_TRIM38; PRY/SPRY domain of tripartite motif-binding protein 38 (TRIM38), also known as Ring finger protein 15 (RNF15)
    cd16600
    Location:1363
    RING-HC_TRIM38_C-IV; RING finger, HC subclass, found in tripartite motif-containing protein 38 (TRIM38) and similar proteins

RefSeqs of Annotated Genomes: Homo sapiens Updated 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_000006.12 Reference GRCh38.p13 Primary Assembly

    Range
    25962723..25991231
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005248800.5XP_005248857.1  E3 ubiquitin-protein ligase TRIM38 isoform X1

    See identical proteins and their annotated locations for XP_005248857.1

    UniProtKB/Swiss-Prot
    O00635
    UniProtKB/TrEMBL
    A0A024QZY4
    Conserved Domains (3) summary
    smart00336
    Location:88129
    BBOX; B-Box-type zinc finger
    cd15815
    Location:280461
    SPRY_PRY_TRIM38; PRY/SPRY domain of tripartite motif-binding protein 38 (TRIM38), also known as Ring finger protein 15 (RNF15)
    cd16600
    Location:1363
    RING-HC_TRIM38_C-IV; RING finger, HC subclass, found in tripartite motif-containing protein 38 (TRIM38) and similar proteins
  2. XM_017010175.2XP_016865664.1  E3 ubiquitin-protein ligase TRIM38 isoform X2

  3. XM_005248799.5XP_005248856.1  E3 ubiquitin-protein ligase TRIM38 isoform X1

    See identical proteins and their annotated locations for XP_005248856.1

    UniProtKB/Swiss-Prot
    O00635
    UniProtKB/TrEMBL
    A0A024QZY4
    Conserved Domains (3) summary
    smart00336
    Location:88129
    BBOX; B-Box-type zinc finger
    cd15815
    Location:280461
    SPRY_PRY_TRIM38; PRY/SPRY domain of tripartite motif-binding protein 38 (TRIM38), also known as Ring finger protein 15 (RNF15)
    cd16600
    Location:1363
    RING-HC_TRIM38_C-IV; RING finger, HC subclass, found in tripartite motif-containing protein 38 (TRIM38) and similar proteins
  4. XM_024446303.1XP_024302071.1  E3 ubiquitin-protein ligase TRIM38 isoform X1

    Conserved Domains (3) summary
    smart00336
    Location:88129
    BBOX; B-Box-type zinc finger
    cd15815
    Location:280461
    SPRY_PRY_TRIM38; PRY/SPRY domain of tripartite motif-binding protein 38 (TRIM38), also known as Ring finger protein 15 (RNF15)
    cd16600
    Location:1363
    RING-HC_TRIM38_C-IV; RING finger, HC subclass, found in tripartite motif-containing protein 38 (TRIM38) and similar proteins

RNA

  1. XR_001743104.2 RNA Sequence

  2. XR_001743105.2 RNA Sequence

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