Wdtc1 WD and tetratricopeptide repeats 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Wdtc1provided by RGD
Official Full Name: WD and tetratricopeptide repeats 1provided by RGD
Primary source: RGD:1310362
See related: EnsemblRapid:ENSRNOG00000008377 AllianceGenome:RGD:1310362
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 enzyme inhibitor activity; histone binding activity; and histone deacetylase binding activity. Predicted to be involved in negative regulation of fatty acid biosynthetic process. Predicted to act upstream of or within several processes, including cellular response to insulin stimulus; glucose metabolic process; and negative regulation of transcription by RNA polymerase II. Predicted to be located in cytosol and nucleus. Predicted to be part of Cul4-RING E3 ubiquitin ligase complex. Predicted to be active in cytoplasm. Orthologous to human WDTC1 (WD and tetratricopeptide repeats 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Muscle (RPKM 131.3), Kidney (RPKM 125.8) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q36

Exon count:: 19

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (150775358..150843558, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (145491460..145559631, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (151487572..151536829, complement)

Chromosome 5 - NC_086023.1 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 enzyme inhibitor activity	ISO Inferred from Sequence Orthology more info
enables histone binding	ISO Inferred from Sequence Orthology more info
enables histone deacetylase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cellular response to insulin stimulus	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within glucose metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within in utero embryonic development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within intracellular chemical homeostasis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within multicellular organism growth	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of fatty acid biosynthetic process	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within negative regulation of fatty acid biosynthetic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in protein ubiquitination	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of cell size	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of Cul4-RING E3 ubiquitin ligase complex	IBA Inferred from Biological aspect of Ancestor more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: WD and tetratricopeptide repeats protein 1

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_001107908.2 → NP_001101378.1 WD and tetratricopeptide repeats protein 1

See identical proteins and their annotated locations for NP_001101378.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000005

UniProtKB/TrEMBL

A0A8I6ADF1, A6ISW4, D4A7Z0

Related

ENSRNOP00000011311.4, ENSRNOT00000011311.9

Conserved Domains (4) summary

PLN03088
Location:367 → 437

PLN03088; SGT1, suppressor of G2 allele of SKP1; Provisional

sd00006
Location:365 → 389

TPR; TPR repeat [structural motif]

sd00039
Location:51 → 88

7WD40; WD40 repeat [structural motif]

cl29593
Location:34 → 163

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_086023.1 Reference GRCr8

Range

150775358..150843558 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063287533.1 → XP_063143603.1 WD and tetratricopeptide repeats protein 1 isoform X2
XM_039109774.2 → XP_038965702.1 WD and tetratricopeptide repeats protein 1 isoform X1

UniProtKB/TrEMBL

A0A8I6ADF1, A6ISW4, D4A7Z0

Conserved Domains (4) summary

PLN03088
Location:367 → 437

PLN03088; SGT1, suppressor of G2 allele of SKP1; Provisional

sd00006
Location:365 → 389

TPR; TPR repeat [structural motif]

sd00039
Location:51 → 88

7WD40; WD40 repeat [structural motif]

cl29593
Location:34 → 163

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_008764135.4 → XP_008762357.1 WD and tetratricopeptide repeats protein 1 isoform X1

See identical proteins and their annotated locations for XP_008762357.1

UniProtKB/TrEMBL

A0A8I6ADF1, A6ISW4, D4A7Z0

Conserved Domains (4) summary

PLN03088
Location:367 → 437

PLN03088; SGT1, suppressor of G2 allele of SKP1; Provisional

sd00006
Location:365 → 389

TPR; TPR repeat [structural motif]

sd00039
Location:51 → 88

7WD40; WD40 repeat [structural motif]

cl29593
Location:34 → 163

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_063287534.1 → XP_063143604.1 WD and tetratricopeptide repeats protein 1 isoform X3

UniProtKB/TrEMBL

A0A8I5ZUM7

Related

ENSRNOP00000089892.1, ENSRNOT00000118571.2
XM_008764136.4 → XP_008762358.1 WD and tetratricopeptide repeats protein 1 isoform X3

UniProtKB/TrEMBL

A0A8I5ZUM7, A0A8I6ADF1

Related

ENSRNOP00000082810.1, ENSRNOT00000116249.2

Conserved Domains (7) summary

COG2319
Location:42 → 246

WD40; WD40 repeat [General function prediction only]

sd00006
Location:304 → 328

TPR; TPR repeat [structural motif]

pfam00515
Location:334 → 368

TPR_1; Tetratricopeptide repeat

pfam13414
Location:304 → 368

TPR_11; TPR repeat

pfam13432
Location:340 → 405

TPR_16; Tetratricopeptide repeat

sd00039
Location:52 → 88

7WD40; WD40 repeat [structural motif]

cl02567
Location:34 → 160

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_063287535.1 → XP_063143605.1 WD and tetratricopeptide repeats protein 1 isoform X4
XM_039109775.2 → XP_038965703.1 WD and tetratricopeptide repeats protein 1 isoform X2

UniProtKB/TrEMBL

A0A8I6ADF1

Conserved Domains (4) summary

PLN03088
Location:366 → 436

PLN03088; SGT1, suppressor of G2 allele of SKP1; Provisional

sd00006
Location:364 → 388

TPR; TPR repeat [structural motif]

sd00039
Location:51 → 88

7WD40; WD40 repeat [structural motif]

cl29593
Location:34 → 163

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 ...