Zbtb18 zinc finger and BTB domain containing 18 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Zbtb18provided by RGD
Official Full Name: zinc finger and BTB domain containing 18provided by RGD
Primary source: RGD:621548
See related: Ensembl:ENSRNOG00000004423 AllianceGenome:RGD:621548
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Rp58; Zfp238; Znf238
Summary: Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II; positive regulation of transcription by RNA polymerase II; and skeletal muscle tissue development. Predicted to act upstream of or within several processes, including in utero embryonic development; nervous system development; and regulation of cell division. Predicted to be located in heterochromatin and nuclear speck. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in autosomal dominant non-syndromic intellectual disability 22. Orthologous to human ZBTB18 (zinc finger and BTB domain containing 18). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 410.1), Muscle (RPKM 187.4) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 13q25

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	13	NC_086031.1 (91971602..91980058)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	13	NC_051348.1 (89439501..89447958)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	13	NC_005112.4 (95582234..95593316)

Chromosome 13 - NC_086031.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

RP58 knockdown contributes to hypoxia-ischemia-induced pineal dysfunction and circadian rhythm disruption in neonatal rats.
Title: RP58 knockdown contributes to hypoxia-ischemia-induced pineal dysfunction and circadian rhythm disruption in neonatal rats.

Submit: New GeneRIF Correction

General gene information

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Markers

Zfp238 (e-PCR), detects polymorphism
- UniSTS:507337

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription repressor activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription repressor activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific DNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables sequence-specific double-stranded DNA binding	IEA Inferred from Electronic Annotation more info
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cerebellum development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cerebral cortex development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within hippocampus development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within homeostasis of number of cells	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within in utero embryonic development	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within neuron development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of cell division	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in skeletal muscle tissue development	ISO Inferred from Sequence Orthology more info
involved_in skeletal muscle tissue development	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
part_of heterochromatin	IEA Inferred from Electronic Annotation more info
part_of heterochromatin	ISO Inferred from Sequence Orthology more info
located_in nuclear speck	IEA Inferred from Electronic Annotation more info
located_in nuclear speck	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology 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
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: zinc finger and BTB domain-containing protein 18

Names: 58 kDa repressor protein; rRP58; transcriptional repressor RP58; zinc finger protein 238

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_001401285.1 → NP_001388214.1 zinc finger and BTB domain-containing protein 18 isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000013

UniProtKB/TrEMBL

A6JGD3
NM_022678.2 → NP_073169.2 zinc finger and BTB domain-containing protein 18 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000013

UniProtKB/TrEMBL

A0A8I6A6Y8

Related

ENSRNOP00000082972.1, ENSRNOT00000105416.1

Conserved Domains (4) summary

COG5048
Location:351 → 481

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:412 → 432

ZF_C2H2; C2H2 Zn finger [structural motif]

cd18324
Location:1 → 147

BTB_POZ_ZBTB18_RP58; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in zinc finger and BTB domain-containing protein 18 (ZBTB18)

pfam13465
Location:425 → 447

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

NC_086031.1 Reference GRCr8

Range

91971602..91980058

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039091072.1 → XP_038947000.1 zinc finger and BTB domain-containing protein 18 isoform X1

UniProtKB/TrEMBL

A6JGD3, G3V6J7

Conserved Domains (4) summary

COG5048
Location:360 → 490

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:421 → 441

ZF_C2H2; C2H2 Zn finger [structural motif]

cd18324
Location:10 → 156

BTB_POZ_ZBTB18_RP58; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in zinc finger and BTB domain-containing protein 18 (ZBTB18)

pfam13465
Location:434 → 456

zf-H2C2_2; Zinc-finger double domain
XM_039091074.1 → XP_038947002.1 zinc finger and BTB domain-containing protein 18 isoform X1

UniProtKB/TrEMBL

A6JGD3, G3V6J7

Conserved Domains (4) summary

COG5048
Location:360 → 490

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:421 → 441

ZF_C2H2; C2H2 Zn finger [structural motif]

cd18324
Location:10 → 156

BTB_POZ_ZBTB18_RP58; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in zinc finger and BTB domain-containing protein 18 (ZBTB18)

pfam13465
Location:434 → 456

zf-H2C2_2; Zinc-finger double domain
XM_039091078.1 → XP_038947006.1 zinc finger and BTB domain-containing protein 18 isoform X2

UniProtKB/TrEMBL

A0A8I6A6Y8, G3V6J7

Conserved Domains (4) summary

COG5048
Location:351 → 481

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:412 → 432

ZF_C2H2; C2H2 Zn finger [structural motif]

cd18324
Location:1 → 147

BTB_POZ_ZBTB18_RP58; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in zinc finger and BTB domain-containing protein 18 (ZBTB18)

pfam13465
Location:425 → 447

zf-H2C2_2; Zinc-finger double domain
XM_039091073.2 → XP_038947001.1 zinc finger and BTB domain-containing protein 18 isoform X1

UniProtKB/TrEMBL

A6JGD3, G3V6J7

Conserved Domains (4) summary

COG5048
Location:360 → 490

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:421 → 441

ZF_C2H2; C2H2 Zn finger [structural motif]

cd18324
Location:10 → 156

BTB_POZ_ZBTB18_RP58; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in zinc finger and BTB domain-containing protein 18 (ZBTB18)

pfam13465
Location:434 → 456

zf-H2C2_2; Zinc-finger double domain
XM_006250328.4 → XP_006250390.1 zinc finger and BTB domain-containing protein 18 isoform X1

See identical proteins and their annotated locations for XP_006250390.1

UniProtKB/TrEMBL

A6JGD3, G3V6J7

Conserved Domains (4) summary

COG5048
Location:360 → 490

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:421 → 441

ZF_C2H2; C2H2 Zn finger [structural motif]

cd18324
Location:10 → 156

BTB_POZ_ZBTB18_RP58; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in zinc finger and BTB domain-containing protein 18 (ZBTB18)

pfam13465
Location:434 → 456

zf-H2C2_2; Zinc-finger double domain
XM_006250331.4 → XP_006250393.1 zinc finger and BTB domain-containing protein 18 isoform X2

See identical proteins and their annotated locations for XP_006250393.1

UniProtKB/TrEMBL

A0A8I6A6Y8, G3V6J7

Conserved Domains (4) summary

COG5048
Location:351 → 481

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:412 → 432

ZF_C2H2; C2H2 Zn finger [structural motif]

cd18324
Location:1 → 147

BTB_POZ_ZBTB18_RP58; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in zinc finger and BTB domain-containing protein 18 (ZBTB18)

pfam13465
Location:425 → 447

zf-H2C2_2; Zinc-finger double domain