Trim39 tripartite motif-containing 39 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Trim39provided by MGI
Official Full Name: tripartite motif-containing 39provided by MGI
Primary source: MGI:MGI:1890659
See related: Ensembl:ENSMUSG00000045409 AllianceGenome:MGI:1890659
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: tfp; Rnf23; mKIAA4179; RBCC-B30.2; 1100001D15Rik; E130103K13Rik
Summary: Predicted to enable identical protein binding activity and ubiquitin protein ligase activity. Predicted to be involved in several processes, including protein stabilization; regulation of cell cycle phase transition; and regulation of signal transduction. Predicted to act upstream of or within apoptotic process. Predicted to be located in cytosol; mitochondrion; and nucleus. Predicted to be active in cytoplasm. Is expressed in several structures, including brain; cardiovascular system; genitourinary system; gut; and immune system. Orthologous to human TRIM39 (tripartite motif containing 39). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in testis adult (RPKM 12.6), CNS E14 (RPKM 11.4) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 17 B1; 17 19.01 cM

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	17	NC_000083.7 (36569764..36582896, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	17	NC_000083.6 (36258872..36272004, complement)

Chromosome 17 - NC_000083.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (2)
Targeted (2)

General gene information

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Markers

06.MMHAP48FLB3.seq (e-PCR)
- UniSTS:122857

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables transferase activity	IEA Inferred from Electronic Annotation more info
enables ubiquitin protein ligase activity	IBA Inferred from Biological aspect of Ancestor more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in mitotic G2 DNA damage checkpoint signaling	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of proteasomal ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of proteasomal ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of apoptotic signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of apoptotic signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in protein stabilization	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein stabilization	ISO Inferred from Sequence Orthology more info
involved_in protein ubiquitination	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of cell cycle G1/S phase transition	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in mitochondrion	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: E3 ubiquitin-protein ligase TRIM39

Names: RING-B box-coiled-coil-B30.2; RING-type E3 ubiquitin transferase TRIM39; ring finger protein 23; testis-abundant finger protein; tripartite motif-containing protein 39

NP_001344818.1

EC 2.3.2.27

NP_001361535.1

EC 2.3.2.27

NP_077788.2

EC 2.3.2.27

NP_840065.1

EC 2.3.2.27

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)

NM_001357889.1 → NP_001344818.1 E3 ubiquitin-protein ligase TRIM39 isoform 2

Status: VALIDATED

Source sequence(s)

AC129554, AK053507

Related

ENSMUST00000113704.10

Conserved Domains (3) summary

cd16601
Location:26 → 69

RING-HC_TRIM39_C-IV; RING finger, HC subclass, found in tripartite motif-containing protein 39 (TRIM39) and similar proteins

cl21478
Location:177 → 246

ATP-synt_B; ATP synthase B/B' CF(0)

cl28410
Location:20 → 179

RAD18; RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
NM_001374606.1 → NP_001361535.1 E3 ubiquitin-protein ligase TRIM39 isoform 3

Status: VALIDATED

Source sequence(s)

AC129554

UniProtKB/Swiss-Prot

Q8BPR5, Q8K0F7, Q9ESN2

UniProtKB/TrEMBL

G3UWI0

Related

ENSMUSP00000133298.2, ENSMUST00000173369.2

Conserved Domains (4) summary

PRK02224
Location:144 → 294

PRK02224; DNA double-strand break repair Rad50 ATPase

cd13745
Location:314 → 491

SPRY_PRY_TRIM39; PRY/SPRY domain in tripartite motif-binding protein 39 (TRIM39) and TRIM39-like

cd16601
Location:26 → 69

RING-HC_TRIM39_C-IV; RING finger, HC subclass, found in tripartite motif-containing protein 39 (TRIM39) and similar proteins

cd19780
Location:103 → 146

Bbox2_TRIM39-like; B-box-type 2 zinc finger found in tripartite motif-containing proteins TRIM39, TRIM58 and similar proteins
NM_024468.2 → NP_077788.2 E3 ubiquitin-protein ligase TRIM39 isoform 1

See identical proteins and their annotated locations for NP_077788.2

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.

Source sequence(s)

AB046382, AK220298

Consensus CDS

CCDS37611.1

UniProtKB/Swiss-Prot

Q8BPR5, Q8K0F7, Q9ESN2

UniProtKB/TrEMBL

E9QLN4

Related

ENSMUSP00000039790.7, ENSMUST00000042717.13

Conserved Domains (4) summary

cd00021
Location:106 → 143

BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.

pfam15227
Location:29 → 69

zf-C3HC4_4; zinc finger of C3HC4-type, RING

cd13745
Location:305 → 483

SPRY_PRY_TRIM39; PRY/SPRY domain in tripartite motif-binding protein 39 (TRIM39) and TRIM39-like

cl23765
Location:151 → 272

iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits
NM_178281.1 → NP_840065.1 E3 ubiquitin-protein ligase TRIM39 isoform 1

See identical proteins and their annotated locations for NP_840065.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1 and 2 encode the same protein.

Source sequence(s)

AK220298, BY312131

Consensus CDS

CCDS37611.1

UniProtKB/Swiss-Prot

Q8BPR5, Q8K0F7, Q9ESN2

UniProtKB/TrEMBL

E9QLN4

Related

ENSMUSP00000109336.4, ENSMUST00000113706.10

Conserved Domains (4) summary

cd00021
Location:106 → 143

BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.

pfam15227
Location:29 → 69

zf-C3HC4_4; zinc finger of C3HC4-type, RING

cd13745
Location:305 → 483

SPRY_PRY_TRIM39; PRY/SPRY domain in tripartite motif-binding protein 39 (TRIM39) and TRIM39-like

cl23765
Location:151 → 272

iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits