rpf1 ribosome production factor 1 homolog [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: rpf1provided by ZNC
Official Full Name: ribosome production factor 1 homologprovided by ZNC
Primary source: ZFIN:ZDB-GENE-040625-177
See related: Ensembl:ENSDARG00000005738 AllianceGenome:ZFIN:ZDB-GENE-040625-177
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: bxdc5; zgc:86604
Summary: Predicted to enable RNA binding activity. Predicted to be involved in maturation of 5.8S rRNA and maturation of LSU-rRNA. Predicted to act upstream of or within rRNA processing. Predicted to be located in nucleus. Predicted to be part of preribosome, large subunit precursor. Predicted to be active in nucleolus. Orthologous to human RPF1 (ribosome production factor 1 homolog). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 11

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	11	NC_007122.7 (16094662..16115804, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	11	NC_007122.6 (15960027..15981169, complement)

Chromosome 11 - NC_007122.7 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: 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?

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General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables RNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables rRNA binding	IEA Inferred from Electronic Annotation more info
enables rRNA primary transcript binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in maturation of 5.8S rRNA	IBA Inferred from Biological aspect of Ancestor more info
involved_in maturation of LSU-rRNA	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within rRNA processing	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within ribosome biogenesis	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in nucleolus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleolus	IEA Inferred from Electronic Annotation more info
located_in nucleolus	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of preribosome, large subunit precursor	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: ribosome production factor 1

Names: brix domain containing 5; brix domain-containing protein 5; ribosome biogenesis protein RPF1

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_001002160.2 → NP_001002160.2 ribosome production factor 1 isoform 1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).

Source sequence(s)

EH455622, EH605435

UniProtKB/Swiss-Prot

Q6IQU6

UniProtKB/TrEMBL

A0A2R8QNF3, A0A8M1N000

Related

ENSDARP00000117162.1, ENSDART00000143436.3

Conserved Domains (1) summary

smart00879
Location:151 → 320

Brix; The Brix domain is found in a number of eukaryotic proteins
NM_001244839.1 → NP_001231768.1 ribosome production factor 1 isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks two exons in the coding region but maintains the reading frame, compared to variant 1. This variant encodes isoform 2, which is shorter than isoform 1.

Source sequence(s)

EH455622, EH517711, EH536597

UniProtKB/TrEMBL

A0A0R4IWG2, A0A8M1NZ73

Related

ENSDARP00000139153.1, ENSDART00000157928.2

Conserved Domains (1) summary

smart00879
Location:148 → 239

Brix; The Brix domain is found in a number of eukaryotic proteins