Wdr45 WD repeat domain 45 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Wdr45provided by RGD
Official Full Name: WD repeat domain 45provided by RGD
Primary source: RGD:1359718
See related: EnsemblRapid:ENSRNOG00000009749 AllianceGenome:RGD:1359718
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
Summary: Predicted to enable phosphatidylinositol-3,5-bisphosphate binding activity; phosphatidylinositol-3-phosphate binding activity; and protein kinase binding activity. Predicted to be involved in several processes, including autophagy of mitochondrion; macroautophagy; and positive regulation of autophagosome assembly. Predicted to be located in phagophore assembly site. Predicted to be active in cytosol and phagophore assembly site membrane. Human ortholog(s) of this gene implicated in neurodegeneration with brain iron accumulation 5. Orthologous to human WDR45 (WD repeat domain 45). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Heart (RPKM 159.2), Lung (RPKM 128.4) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: Xq12

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	X	NC_086039.1 (17448195..17454117, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	X	NC_051356.1 (14776280..14782202, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	X	NC_005120.4 (15621249..15627159, complement)

Chromosome X - NC_086039.1 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?

Submit: New GeneRIF Correction

General gene information

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Markers

MARC_3991-3992:996679250:1 (e-PCR)
- UniSTS:269302

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables lipid binding	IEA Inferred from Electronic Annotation more info
enables phosphatidylinositol phosphate binding	ISO Inferred from Sequence Orthology more info
enables phosphatidylinositol phosphate binding	ISS Inferred from Sequence or Structural Similarity more info
enables phosphatidylinositol-3,5-bisphosphate binding	IBA Inferred from Biological aspect of Ancestor more info
enables phosphatidylinositol-3-phosphate binding	IBA Inferred from Biological aspect of Ancestor more info
enables phosphatidylinositol-3-phosphate binding	IEA Inferred from Electronic Annotation more info
enables phosphatidylinositol-3-phosphate binding	ISO Inferred from Sequence Orthology more info
enables phosphatidylinositol-3-phosphate binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein kinase binding	IEA Inferred from Electronic Annotation more info
enables protein kinase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in autophagosome assembly	IEA Inferred from Electronic Annotation more info
involved_in autophagosome assembly	ISO Inferred from Sequence Orthology more info
involved_in autophagosome assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in autophagy	IEA Inferred from Electronic Annotation more info
involved_in autophagy	ISO Inferred from Sequence Orthology more info
involved_in autophagy	ISS Inferred from Sequence or Structural Similarity more info
involved_in autophagy of mitochondrion	IBA Inferred from Biological aspect of Ancestor more info
involved_in autophagy of peroxisome	IBA Inferred from Biological aspect of Ancestor more info
involved_in cellular response to starvation	IEA Inferred from Electronic Annotation more info
involved_in cellular response to starvation	ISO Inferred from Sequence Orthology more info
involved_in cellular response to starvation	ISS Inferred from Sequence or Structural Similarity more info
involved_in glycophagy	IBA Inferred from Biological aspect of Ancestor more info
involved_in nucleophagy	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of autophagosome assembly	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of autophagosome assembly	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of autophagosome assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein lipidation involved in autophagosome assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein localization to phagophore assembly site	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in phagophore assembly site	IEA Inferred from Electronic Annotation more info
located_in phagophore assembly site	ISO Inferred from Sequence Orthology more info
located_in phagophore assembly site	ISS Inferred from Sequence or Structural Similarity more info
is_active_in phagophore assembly site membrane	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: WD repeat domain phosphoinositide-interacting protein 4

Names: WD repeat-containing protein 45; WIPI-4

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_001013958.2 → NP_001013980.1 WD repeat domain phosphoinositide-interacting protein 4 isoform 2

See identical proteins and their annotated locations for NP_001013980.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000021

UniProtKB/Swiss-Prot

Q5U2Y0

UniProtKB/TrEMBL

A0A8I6AA46

Related

ENSRNOP00000088610.1, ENSRNOT00000101997.2
NM_001398793.1 → NP_001385722.1 WD repeat domain phosphoinositide-interacting protein 4 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000021

Related

ENSRNOP00000094004.1, ENSRNOT00000118193.2

Conserved Domains (2) summary

sd00039
Location:196 → 232

7WD40; WD40 repeat [structural motif]

cl29593
Location:187 → 274

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 ...
NM_001398794.1 → NP_001385723.1 WD repeat domain phosphoinositide-interacting protein 4 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000021

Conserved Domains (2) summary

sd00039
Location:196 → 232

7WD40; WD40 repeat [structural motif]

cl29593
Location:187 → 274

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 ...
NM_001398795.1 → NP_001385724.1 WD repeat domain phosphoinositide-interacting protein 4 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000021

Conserved Domains (2) summary

sd00039
Location:196 → 232

7WD40; WD40 repeat [structural motif]

cl29593
Location:187 → 274

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 ...

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_086039.1 Reference GRCr8

Range

17448195..17454117 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006256712.4 → XP_006256774.1 WD repeat domain phosphoinositide-interacting protein 4 isoform X1

See identical proteins and their annotated locations for XP_006256774.1

UniProtKB/TrEMBL

A0A140TAA5, A6KP86

Related

ENSRNOP00000013369.7, ENSRNOT00000013369.9

Conserved Domains (2) summary

sd00039
Location:197 → 233

7WD40; WD40 repeat [structural motif]

cl29593
Location:188 → 275

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 ...
XM_006256710.4 → XP_006256772.1 WD repeat domain phosphoinositide-interacting protein 4 isoform X1

See identical proteins and their annotated locations for XP_006256772.1

UniProtKB/TrEMBL

A0A140TAA5, A6KP86

Conserved Domains (2) summary

sd00039
Location:197 → 233

7WD40; WD40 repeat [structural motif]

cl29593
Location:188 → 275

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 ...
XM_063279924.1 → XP_063135994.1 WD repeat domain phosphoinositide-interacting protein 4 isoform X2
XM_063279926.1 → XP_063135996.1 WD repeat domain phosphoinositide-interacting protein 4 isoform X2
XM_039099632.2 → XP_038955560.1 WD repeat domain phosphoinositide-interacting protein 4 isoform X1

UniProtKB/TrEMBL

A0A140TAA5, A6KP86

Conserved Domains (2) summary

sd00039
Location:197 → 233

7WD40; WD40 repeat [structural motif]

cl29593
Location:188 → 275

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 ...
XM_063279925.1 → XP_063135995.1 WD repeat domain phosphoinositide-interacting protein 4 isoform X2
XM_039099634.2 → XP_038955562.1 WD repeat domain phosphoinositide-interacting protein 4 isoform X1

UniProtKB/TrEMBL

A0A140TAA5, A6KP86

Conserved Domains (2) summary

sd00039
Location:197 → 233

7WD40; WD40 repeat [structural motif]

cl29593
Location:188 → 275

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 ...
XM_063279923.1 → XP_063135993.1 WD repeat domain phosphoinositide-interacting protein 4 isoform X2