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Zfp18 zinc finger protein 18 [ Rattus norvegicus (Norway rat) ]

Gene ID: 303226, updated on 27-Nov-2024

Summary

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Official Symbol
Zfp18provided by RGD
Official Full Name
zinc finger protein 18provided by RGD
Primary source
RGD:1305130
See related
EnsemblRapid:ENSRNOG00000003981 AllianceGenome:RGD:1305130
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Znf18; Zfp535; Zkscan6
Summary
Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Orthologous to human ZNF18 (zinc finger protein 18). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Thymus (RPKM 77.6), Lung (RPKM 68.8) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Zfp18 in Genome Data Viewer
Location:
10q24
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (50972531..50994796)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (50473428..50495707)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (52327668..52350944)

Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102554159 Neighboring gene THAP domain-containing protein 5-like Neighboring gene mitogen activated protein kinase kinase 4 Neighboring gene dynein, axonemal, heavy chain 9 Neighboring gene uncharacterized LOC120095122 Neighboring gene shisa family member 6 Neighboring gene uncharacterized LOC134480810

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, 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 RGD

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
zinc finger protein 18
Names
zinc finger protein 535
zinc finger with KRAB and SCAN domains 6

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_001012008.1 → NP_001012008.1  zinc finger protein 18

    See identical proteins and their annotated locations for NP_001012008.1

    Status: PROVISIONAL

    Source sequence(s)
    BC081874
    UniProtKB/Swiss-Prot
    Q642B9
    UniProtKB/TrEMBL
    A6HFG0
    Conserved Domains (7) summary
    smart00431
    Location:37 → 144
    SCAN; leucine rich region
    cd07765
    Location:226 → 256
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    COG5048
    Location:428 → 521
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:473 → 493
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:527 → 549
    zf-C2H2; Zinc finger, C2H2 type
    pfam02023
    Location:37 → 125
    SCAN; SCAN domain
    pfam13465
    Location:513 → 537
    zf-H2C2_2; Zinc-finger double domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086028.1 Reference GRCr8

    Range
    50972531..50994796
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006246695.5 → XP_006246757.1  zinc finger protein 18 isoform X1

    See identical proteins and their annotated locations for XP_006246757.1

    UniProtKB/Swiss-Prot
    Q642B9
    UniProtKB/TrEMBL
    A6HFG0
    Related
    ENSRNOP00000005518.4, ENSRNOT00000005518.6
    Conserved Domains (7) summary
    smart00431
    Location:37 → 144
    SCAN; leucine rich region
    cd07765
    Location:226 → 256
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    COG5048
    Location:428 → 521
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:473 → 493
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:527 → 549
    zf-C2H2; Zinc finger, C2H2 type
    pfam02023
    Location:37 → 125
    SCAN; SCAN domain
    pfam13465
    Location:513 → 537
    zf-H2C2_2; Zinc-finger double domain

  2. XM_006246696.5 → XP_006246758.1  zinc finger protein 18 isoform X2

    UniProtKB/TrEMBL
    A0A8L2Q1J6
    Conserved Domains (7) summary
    smart00431
    Location:37 → 144
    SCAN; leucine rich region
    cd07765
    Location:226 → 256
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    COG5048
    Location:427 → 520
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:472 → 492
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:526 → 548
    zf-C2H2; Zinc finger, C2H2 type
    pfam02023
    Location:37 → 125
    SCAN; SCAN domain
    pfam13465
    Location:512 → 536
    zf-H2C2_2; Zinc-finger double domain

  3. XM_006246697.5 → XP_006246759.1  zinc finger protein 18 isoform X3

    UniProtKB/TrEMBL
    A0A8I6GAI4
    Related
    ENSRNOP00000084497.1, ENSRNOT00000103112.2
    Conserved Domains (7) summary
    smart00431
    Location:37 → 144
    SCAN; leucine rich region
    cd07765
    Location:226 → 256
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    COG5048
    Location:390 → 483
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:435 → 455
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:489 → 511
    zf-C2H2; Zinc finger, C2H2 type
    pfam02023
    Location:37 → 125
    SCAN; SCAN domain
    pfam13465
    Location:475 → 499
    zf-H2C2_2; Zinc-finger double domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q642B9.1 GenPept UniProtKB/Swiss-Prot:Q642B9

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