Trim25 tripartite motif-containing 25 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Trim25provided by RGD
Official Full Name: tripartite motif-containing 25provided by RGD
Primary source: RGD:1594396
See related: EnsemblRapid:ENSRNOG00000002341 AllianceGenome:RGD:1594396
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Efp; Znf147
Summary: Predicted to enable RIG-I binding activity; transcription coactivator activity; and ubiquitin protein ligase activity. Involved in response to estrogen and response to vitamin D. Predicted to be located in cytoplasmic stress granule; cytosol; and nuclear body. Orthologous to human TRIM25 (tripartite motif containing 25). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Adrenal (RPKM 220.2), Liver (RPKM 133.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q26

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (74310024..74328473)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (73812818..73831271)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (76343847..76362159)

Chromosome 10 - NC_086028.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RIG-I binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables transcription coactivator activity	ISO Inferred from Sequence Orthology more info
enables ubiquitin protein ligase activity	ISO Inferred from Sequence Orthology more info
enables ubiquitin-protein transferase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in ERAD pathway	ISO Inferred from Sequence Orthology more info
NOT involved_in RIG-I signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in antiviral innate immune response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to leukemia inhibitory factor	ISO Inferred from Sequence Orthology more info
involved_in cytoplasmic pattern recognition receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in innate immune response	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of viral entry into host cell	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of NF-kappaB transcription factor activity	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of NF-kappaB transcription factor activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology more info
involved_in protein K48-linked ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein monoubiquitination	ISO Inferred from Sequence Orthology more info
involved_in regulation of protein localization	ISO Inferred from Sequence Orthology more info
involved_in regulation of viral entry into host cell	ISO Inferred from Sequence Orthology more info
involved_in response to estrogen	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to estrogen	ISO Inferred from Sequence Orthology more info
involved_in response to oxidative stress	ISO Inferred from Sequence Orthology more info
involved_in response to vitamin D	IEP Inferred from Expression Pattern more info	PubMed
involved_in suppression of viral release by host	ISO Inferred from Sequence Orthology more info
involved_in ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in viral release from host cell	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic stress granule	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nuclear body	IEA Inferred from Electronic Annotation more info
located_in nuclear body	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	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/ISG15 ligase TRIM25

Names: estrogen-responsive finger protein; tripartite motif protein 25; zinc finger protein 147

NP_001009536.1

EC 6.3.2.19

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_001009536.1 → NP_001009536.1 E3 ubiquitin/ISG15 ligase TRIM25

See identical proteins and their annotated locations for NP_001009536.1

Status: PROVISIONAL

Source sequence(s)

BC061749

UniProtKB/TrEMBL

D4A9N5, Q6P7B3

Related

ENSRNOP00000052533.4, ENSRNOT00000055674.6

Conserved Domains (4) summary

cd00162
Location:13 → 56

RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

pfam10191
Location:192 → 314

COG7; Golgi complex component 7 (COG7)

cd13736
Location:473 → 641

SPRY_PRY_TRIM25; PRY/SPRY domain in tripartite motif-containing domain 25 (TRIM25)

cl00788
Location:342 → 451

MttA_Hcf106; mttA/Hcf106 family