trim62.1 tripartite motif containing 62, tandem duplicate 1 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: trim62.1provided by ZNC
Official Full Name: tripartite motif containing 62, tandem duplicate 1provided by ZNC
Primary source: ZFIN:ZDB-GENE-070112-502
See related: Ensembl:ENSDARG00000060901 AllianceGenome:ZFIN:ZDB-GENE-070112-502
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: trim62; zgc:158653
Summary: Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in several processes, including positive regulation of I-kappaB kinase/NF-kappaB signaling; positive regulation of NF-kappaB transcription factor activity; and protein ubiquitination. Predicted to be active in cytoplasm. Orthologous to human TRIM62 (tripartite motif containing 62). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: all
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Genomic context

Location:: chromosome: 11

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	11	NC_007122.7 (40331913..40419007, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	11	NC_007122.6 (40067768..40154835, complement)

Chromosome 11 - NC_007122.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

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 ZFIN

Function	Evidence Code	Pubs
enables metal ion binding	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
involved_in innate immune response	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of NF-kappaB transcription factor activity	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of canonical NF-kappaB signal transduction	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein ubiquitination	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: E3 ubiquitin-protein ligase TRIM62

NP_001074143.1

EC 2.3.2.27

XP_021335341.1

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_001080674.1 → NP_001074143.1 E3 ubiquitin-protein ligase TRIM62

See identical proteins and their annotated locations for NP_001074143.1

Status: PROVISIONAL

Source sequence(s)

BC129354

UniProtKB/TrEMBL

A1L254

Related

ENSDARP00000080731.3, ENSDART00000086296.6

Conserved Domains (4) summary

cd00162
Location:11 → 57

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 ...

pfam00643
Location:93 → 128

zf-B_box; B-box zinc finger

cl02614
Location:284 → 471

SPRY; SPRY domain

cl23765
Location:136 → 245

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

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...

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

Reference GRCz11 Primary Assembly

Genomic

NC_007122.7 Reference GRCz11 Primary Assembly

Range

40331913..40419007 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021479666.1 → XP_021335341.1 E3 ubiquitin-protein ligase TRIM62 isoform X1

UniProtKB/TrEMBL

A0A8M9QHS6

Conserved Domains (4) summary

cd16608
Location:6 → 55

RING-HC_TRIM62_C-IV; RING finger, HC subclass, found in tripartite motif-containing protein 62 (TRIM62) and similar proteins

cl02614
Location:299 → 486

SPRY; SPRY domain

cl25407
Location:136 → 245

ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)

cl28410
Location:5 → 157

RAD18; RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]