ube4b ubiquitination factor E4B, UFD2 homolog (S. cerevisiae) [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: ube4bprovided by ZNC
Official Full Name: ubiquitination factor E4B, UFD2 homolog (S. cerevisiae)provided by ZNC
Primary source: ZFIN:ZDB-GENE-020205-1
See related: Ensembl:ENSDARG00000037017 AllianceGenome:ZFIN:ZDB-GENE-020205-1
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: UFD2; zgc:109766
Summary: Predicted to enable ubiquitin-ubiquitin ligase activity. Predicted to be involved in protein polyubiquitination and ubiquitin-dependent ERAD pathway. Predicted to act upstream of or within protein ubiquitination and ubiquitin-dependent protein catabolic process. Predicted to be part of ubiquitin ligase complex. Predicted to be active in cytoplasm and nucleus. Is expressed in female organism; heart; and skeletal muscle. Orthologous to human UBE4B (ubiquitination factor E4B). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 23

Exon count:: 29

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	23	NC_007134.7 (29507315..29553712, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	23	NC_007134.6 (29580774..29627171, complement)

Chromosome 23 - NC_007134.7 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 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?

The regulated expression of these UFD2a isoforms most likely imparts divergent functions that are important for myogenesis.
Title: A novel conserved isoform of the ubiquitin ligase UFD2a/UBE4B is expressed exclusively in mature striated muscle cells.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables ubiquitin-protein transferase activity	IEA Inferred from Electronic Annotation more info
enables ubiquitin-ubiquitin ligase activity	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin-ubiquitin ligase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in ERAD pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within ERAD pathway	IEA Inferred from Electronic Annotation more info
involved_in protein polyubiquitination	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within protein ubiquitination	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within ubiquitin-dependent protein catabolic process	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
part_of ubiquitin ligase complex	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: ubiquitin conjugation factor E4 B

Names: UBE4B-II splice

NP_919343.2

EC 2.3.2.27

XP_021325394.1

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_194362.2 → NP_919343.2 ubiquitin conjugation factor E4 B

Status: VALIDATED

Source sequence(s)

BX571850, EH441473, EH459986, EH552968

UniProtKB/TrEMBL

A0A8M1P8S1, F1Q5A9

Related

ENSDARP00000053803.6, ENSDART00000053804.8

Conserved Domains (2) summary

pfam04564
Location:1109 → 1179

U-box; U-box domain

pfam10408
Location:472 → 1092

Ufd2P_core; Ubiquitin elongating factor core

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_007134.7 Reference GRCz11 Primary Assembly

Range

29507315..29553712 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021469719.1 → XP_021325394.1 ubiquitin conjugation factor E4 B isoform X1

UniProtKB/TrEMBL

A0A8M9PKI9

Related

ENSDARP00000105688.3, ENSDART00000126384.3

Conserved Domains (3) summary

pfam10408
Location:638 → 1258

Ufd2P_core; Ubiquitin elongating factor core

cd16658
Location:1271 → 1345

RING-Ubox_UBE4B; U-box domain, a modified RING finger, found in ubiquitin conjugation factor E4 B (UBE4B) and similar proteins

cl26464
Location:239 → 413

Atrophin-1; Atrophin-1 family