Rif1 Rap1 interacting factor 1 [Drosophila melanogaster (fruit fly)] - Gene

Summary

Official Symbol: Rif1provided by FlyBase
Official Full Name: Rap1 interacting factor 1provided by FlyBase
Primary source: FLYBASE:FBgn0050085
Locus tag: Dmel_CG30085
See related: AllianceGenome:FB:FBgn0050085
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Drosophila melanogaster
Lineage: Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
Also known as: BcDNA:LD22218; CG30085; Dmel\CG30085; dRif1; XM_080537.1
Summary: Involved in embryonic development via the syncytial blastoderm; negative regulation of mitotic cell cycle phase transition; and regulation of DNA-templated DNA replication. Located in chromocenter and chromosome. Is expressed in several structures, including embryonic/larval midgut primordium; ganglia; head epidermis primordium; imaginal disc; and mesoderm. Orthologous to human RIF1 (replication timing regulatory factor 1). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: 52C8-52C8; 2-75 cM

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
Release 6.54	current	Release 6 plus ISO1 MT (GCF_000001215.4)	2R	NT_033778.4 (15864309..15869147, complement)
Release 5.57	previous assembly	Release 5 (GCF_000001215.2)	2R	NT_033778.3 (11751814..11756652, complement)

Chromosome 2R - NT_033778.4 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The epistatic relationship of Drosophila melanogaster CtIP and Rif1 in homology-directed repair of DNA double-strand breaks.
Title: The epistatic relationship of Drosophila melanogaster CtIP and Rif1 in homology-directed repair of DNA double-strand breaks.
Otu and Rif1 Double Mutant Enables Analysis of Satellite DNA in Polytene Chromosomes of Ovarian Germ Cells in Drosophila melanogaster.
Title: Otu and Rif1 Double Mutant Enables Analysis of Satellite DNA in Polytene Chromosomes of Ovarian Germ Cells in Drosophila melanogaster.
Temporal control of late replication and coordination of origin firing by self-stabilizing Rif1-PP1 hubs in Drosophila.
Title: Temporal control of late replication and coordination of origin firing by self-stabilizing Rif1-PP1 hubs in Drosophila.
Replication timing analysis in polyploid cells reveals Rif1 uses multiple mechanisms to promote underreplication in Drosophila.
Title: Replication timing analysis in polyploid cells reveals Rif1 uses multiple mechanisms to promote underreplication in Drosophila.
The Organization of Pericentromeric Heterochromatin in Polytene Chromosome 3 of the Drosophilamelanogaster Line with the Rif1(1); SuUR(ES) Su(var)3-9(06) Mutations Suppressing Underreplication.
Title: The Organization of Pericentromeric Heterochromatin in Polytene Chromosome 3 of the Drosophilamelanogaster Line with the Rif1(1); SuUR(ES) Su(var)3-9(06) Mutations Suppressing Underreplication.
Effects of Mutations in the Drosophila melanogaster Rif1 Gene on the Replication and Underreplication of Pericentromeric Heterochromatin in Salivary Gland Polytene Chromosomes.
Title: Effects of Mutations in the Drosophila melanogaster Rif1 Gene on the Replication and Underreplication of Pericentromeric Heterochromatin in Salivary Gland Polytene Chromosomes.
Rif1 Functions in a Tissue-Specific Manner To Control Replication Timing Through Its PP1-Binding Motif.
Title: Rif1 Functions in a Tissue-Specific Manner To Control Replication Timing Through Its PP1-Binding Motif.
Rif1 and S phase kinases compose a replication timer controlling first the developmental onset of late replication and then the precise schedule of replication within S phase.
Title: Rif1 prolongs the embryonic S phase at the Drosophila mid-blastula transition.
These findings uncover an unrecognized function of the Rif1 protein as a regulator of replication fork progression.
Title: Rif1 inhibits replication fork progression and controls DNA copy number in Drosophila.
Ectopic expression of dRif1 causes enlarged larval imaginal discs and early pupal lethality which is completely reversed by co-expression of PP1 87B, the major protein phosphatase in Drosophila, indicating genetic and functional interaction
Title: Drosophila Rif1 is an essential gene and controls late developmental events by direct interaction with PP1-87B.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

NCBI Orthologs

Orthologs from OrthoDB

Gene Ontology Provided by FlyBase

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in embryonic development via the syncytial blastoderm	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of DNA-templated DNA replication	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of mitotic cell cycle phase transition	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of DNA-templated DNA replication initiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in replication fork arrest involved in DNA replication termination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in telomere maintenance	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in chromocenter	IDA Inferred from Direct Assay more info	PubMed
located_in chromosome, telomeric region	IDA Inferred from Direct Assay more info	PubMed
is_active_in chromosome, telomeric repeat region	IBA Inferred from Biological aspect of Ancestor more info
located_in heterochromatin	IDA Inferred from Direct Assay more info	PubMed
located_in nuclear replication fork	IDA Inferred from Direct Assay more info	PubMed
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IMP Inferred from Mutant Phenotype more info	PubMed

General protein information

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Preferred Names: Rap1 interacting factor 1

Names: CG30085-PA; Rap1 interacting factor 1 homolog; Rif1-PA

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

NT_033778.4 Reference assembly

Range

15864309..15869147 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_166120.2 → NP_725497.1 Rap1 interacting factor 1 [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_725497.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q4V5E2, Q9XZ34

Related

FBpp0086441

Conserved Domains (3) summary

pfam12231
Location:110 → 240

Rif1_N; Rap1-interacting factor 1 N terminal

cl25800
Location:827 → 920

GGN; Gametogenetin

cl26464
Location:705 → 1129

Atrophin-1; Atrophin-1 family