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rif1 replication timing regulatory factor 1 [ Danio rerio (zebrafish) ]

Gene ID: 567001, updated on 2-Nov-2024

Summary

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Official Symbol
rif1provided by ZNC
Official Full Name
replication timing regulatory factor 1provided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-3406
See related
Ensembl:ENSDARG00000062650 AllianceGenome:ZFIN:ZDB-GENE-030131-3406
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
fc38c03; wu:fc38c03; si:dkey-89p3.2
Summary
Predicted to be involved in telomere maintenance. Predicted to be located in chromosome, telomeric region. Predicted to be active in chromosome, telomeric repeat region and nucleus. Orthologous to human RIF1 (replication timing regulatory factor 1). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
human mouse all
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Genomic context

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See rif1 in Genome Data Viewer
Location:
chromosome: 9
Exon count:
37
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 9 NC_007120.7 (22780984..22802172)
105 previous assembly GRCz10 (GCF_000002035.5) 9 NC_007120.6 (22970094..22991375)

Chromosome 9 - NC_007120.7Genomic Context describing neighboring genes Neighboring gene integrin, beta 5 Neighboring gene tumor necrosis factor, alpha-induced protein 6 Neighboring gene nebulin Neighboring gene ADP-ribosylation factor-like 5A

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Hematopoietic gene expression profile in zebrafish kidney marrow. Song HD, et al. Proc Natl Acad Sci U S A, 2004 Nov 16. PMID 15520368, Free PMC Article
  2. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Process Evidence Code Pubs
involved_in telomere maintenance IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in chromosome IEA
Inferred from Electronic Annotation
more info
  
located_in chromosome, telomeric region IEA
Inferred from Electronic Annotation
more info
  
is_active_in chromosome, telomeric repeat region IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
telomere-associated protein RIF1
Names
RAP1 interacting factor homolog

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)

  1. NM_001080806.1 → NP_001074275.1  telomere-associated protein RIF1

    See identical proteins and their annotated locations for NP_001074275.1

    Status: PROVISIONAL

    Source sequence(s)
    AL974314
    UniProtKB/TrEMBL
    Q1MSY2
    Related
    ENSDARP00000085249.6, ENSDART00000090816.6
    Conserved Domains (1) summary
    pfam12231
    Location:21 → 356
    Rif1_N; Rap1-interacting factor 1 N terminal

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007120.7 Reference GRCz11 Primary Assembly

    Range
    22780984..22802172
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068223443.1 → XP_068079544.1  telomere-associated protein RIF1 isoform X1

    Related
    ENSDARP00000103401.2, ENSDART00000110992.4

  2. XM_005167575.5 → XP_005167632.1  telomere-associated protein RIF1 isoform X1

    See identical proteins and their annotated locations for XP_005167632.1

    UniProtKB/TrEMBL
    A0A8M2BF22, B0UY57
    Related
    ENSDARP00000117051.1, ENSDART00000143972.3
    Conserved Domains (2) summary
    pfam09528
    Location:1585 → 2104
    Ehrlichia_rpt; Ehrlichia tandem repeat (Ehrlichia_rpt)
    pfam12231
    Location:22 → 363
    Rif1_N; Rap1-interacting factor 1 N terminal

  3. XM_009304633.4 → XP_009302908.1  telomere-associated protein RIF1 isoform X2

    UniProtKB/TrEMBL
    A0A8M3BCF0
    Conserved Domains (2) summary
    pfam09528
    Location:1585 → 2104
    Ehrlichia_rpt; Ehrlichia tandem repeat (Ehrlichia_rpt)
    pfam12231
    Location:22 → 363
    Rif1_N; Rap1-interacting factor 1 N terminal

Reference GRCz11 ALT_DRER_TU_2

Genomic

  1. NW_018395279.1 Reference GRCz11 ALT_DRER_TU_2

    Range
    314783..333462
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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