Wdr5 WD repeat domain 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Wdr5provided by RGD
Full Name: WD repeat domain 5provided by RGD
Primary source: RGD:1305159
See related: EnsemblRapid:ENSRNOG00000008212 AllianceGenome:RGD:1305159
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
Summary: Predicted to enable histone H3K4 methyltransferase activity and methylated histone binding activity. Involved in neuron projection development. Predicted to be located in nucleoplasm. Predicted to be part of histone acetyltransferase complex and histone methyltransferase complex. Orthologous to human WDR5 (WD repeat domain 5). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Thymus (RPKM 141.7), Spleen (RPKM 124.8) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3p12

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (31233048..31254730)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (10836964..10856682)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (6061892..6080724)

Chromosome 3 - NC_086021.1 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 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?

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables histone H3K4 methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone H3K4 methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables histone binding	IBA Inferred from Biological aspect of Ancestor more info
enables methylated histone binding	IEA Inferred from Electronic Annotation more info
enables methylated histone binding	ISO Inferred from Sequence Orthology more info
enables methylated histone binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in gluconeogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of gluconeogenesis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in neuron projection development	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within peptidyl-lysine methylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of gluconeogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of gluconeogenesis	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell cycle	IEA Inferred from Electronic Annotation more info
involved_in regulation of cell cycle	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell division	IEA Inferred from Electronic Annotation more info
involved_in regulation of cell division	ISO Inferred from Sequence Orthology more info
involved_in regulation of embryonic development	IEA Inferred from Electronic Annotation more info
involved_in regulation of embryonic development	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of tubulin deacetylation	IEA Inferred from Electronic Annotation more info
involved_in regulation of tubulin deacetylation	ISO Inferred from Sequence Orthology more info
involved_in skeletal system development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within skeletal system development	ISO Inferred from Sequence Orthology more info
involved_in transcription initiation-coupled chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in transcription initiation-coupled chromatin remodeling	ISO Inferred from Sequence Orthology more info
involved_in transcription initiation-coupled chromatin remodeling	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
part_of ATAC complex	IEA Inferred from Electronic Annotation more info
part_of ATAC complex	ISO Inferred from Sequence Orthology more info
part_of MLL1 complex	IEA Inferred from Electronic Annotation more info
part_of MLL1 complex	ISO Inferred from Sequence Orthology more info
part_of MLL1 complex	ISS Inferred from Sequence or Structural Similarity more info
part_of MLL1/2 complex	ISO Inferred from Sequence Orthology more info
part_of MLL3/4 complex	IEA Inferred from Electronic Annotation more info
part_of MLL3/4 complex	ISO Inferred from Sequence Orthology more info
part_of NSL complex	IEA Inferred from Electronic Annotation more info
part_of NSL complex	ISO Inferred from Sequence Orthology more info
part_of Set1C/COMPASS complex	IBA Inferred from Biological aspect of Ancestor more info
part_of Set1C/COMPASS complex	IEA Inferred from Electronic Annotation more info
part_of Set1C/COMPASS complex	ISO Inferred from Sequence Orthology more info
part_of Set1C/COMPASS complex	ISS Inferred from Sequence or Structural Similarity more info
part_of histone acetyltransferase complex	ISO Inferred from Sequence Orthology more info
part_of histone acetyltransferase complex	ISS Inferred from Sequence or Structural Similarity more info
part_of histone methyltransferase complex	ISO Inferred from Sequence Orthology more info
part_of histone methyltransferase complex	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: WD repeat-containing protein 5

Names: WD repeat-containing protein 5-like

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_001039034.1 → NP_001034123.1 WD repeat-containing protein 5

See identical proteins and their annotated locations for NP_001034123.1

Status: PROVISIONAL

Source sequence(s)

BC100156

UniProtKB/Swiss-Prot

Q498M4

UniProtKB/TrEMBL

A0A8L2Q668, A6JTL5

Related

ENSRNOP00000011556.5, ENSRNOT00000011556.7

Conserved Domains (2) summary

cd00200
Location:37 → 331

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:48 → 85

7WD40; WD40 repeat [structural motif]

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_086021.1 Reference GRCr8

Range

31233048..31254730

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063284063.1 → XP_063140133.1 WD repeat-containing protein 5 isoform X1

UniProtKB/Swiss-Prot

Q498M4

UniProtKB/TrEMBL

A6JTL5
XM_006233831.4 → XP_006233893.1 WD repeat-containing protein 5 isoform X1

See identical proteins and their annotated locations for XP_006233893.1

UniProtKB/Swiss-Prot

Q498M4

UniProtKB/TrEMBL

A0A8L2Q668, A6JTL5

Conserved Domains (2) summary

cd00200
Location:37 → 331

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:48 → 85

7WD40; WD40 repeat [structural motif]