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

    Gene ID: 567001, updated on 9-Dec-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, Dec 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
    • 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

      UniProtKB/TrEMBL
      A0A8M2BF22, B0UY57
      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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