Dcaf6 DDB1 and CUL4 associated factor 6 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Dcaf6provided by RGD
Official Full Name: DDB1 and CUL4 associated factor 6provided by RGD
Primary source: RGD:1561961
See related: EnsemblRapid:ENSRNOG00000003078 AllianceGenome:RGD:1561961
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: Iqwd1; RGD1561961
Summary: Predicted to enable nuclear receptor coactivator activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to be located in cytosol; focal adhesion; and nucleoplasm. Predicted to be part of Cul4-RING E3 ubiquitin ligase complex. Predicted to be active in cytoplasm. Orthologous to human DCAF6 (DDB1 and CUL4 associated factor 6). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Muscle (RPKM 676.5), Testes (RPKM 237.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 13q23

Exon count:: 23

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	13	NC_086031.1 (80159282..80260510, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	13	NC_051348.1 (77626257..77727645, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	13	NC_005112.4 (83578730..83680330, complement)

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?

Submit: New GeneRIF Correction

General gene information

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Markers

D13Got61 (e-PCR)
- UniSTS:115727

AU028781 (e-PCR)
- UniSTS:111992

RH139030 (e-PCR)
- UniSTS:221116

BM391802 (e-PCR)
- UniSTS:261056

RH138015 (e-PCR)
- UniSTS:220102

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables nuclear receptor coactivator activity	IBA Inferred from Biological aspect of Ancestor more info
enables nuclear receptor coactivator activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in positive regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within positive 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

Component	Evidence Code	Pubs
part_of Cul4-RING E3 ubiquitin ligase complex	IBA Inferred from Biological aspect of Ancestor more info
part_of Cul4-RING E3 ubiquitin ligase complex	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in focal adhesion	IEA Inferred from Electronic Annotation more info
located_in focal adhesion	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	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: DDB1- and CUL4-associated factor 6

Names: IQ motif and WD repeats 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_001305159.3 → NP_001292088.1 DDB1- and CUL4-associated factor 6

See identical proteins and their annotated locations for NP_001292088.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000013

UniProtKB/TrEMBL

A0A8I5ZQH9, A6IDG8

Conserved Domains (3) summary

PHA03307
Location:378 → 669

PHA03307; transcriptional regulator ICP4; Provisional

sd00039
Location:55 → 92

7WD40; WD40 repeat [structural motif]

cl29593
Location:43 → 292

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_086031.1 Reference GRCr8

Range

80159282..80260510 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063272121.1 → XP_063128191.1 DDB1- and CUL4-associated factor 6 isoform X13
XM_006250199.5 → XP_006250261.1 DDB1- and CUL4-associated factor 6 isoform X12

See identical proteins and their annotated locations for XP_006250261.1

UniProtKB/TrEMBL

A0A8I5ZQH9

Conserved Domains (3) summary

COG2319
Location:42 → 281

WD40; WD40 repeat [General function prediction only]

sd00039
Location:55 → 92

7WD40; WD40 repeat [structural motif]

cl02567
Location:43 → 292

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_063272120.1 → XP_063128190.1 DDB1- and CUL4-associated factor 6 isoform X11

UniProtKB/TrEMBL

A0A8I5ZQH9
XM_006250198.5 → XP_006250260.1 DDB1- and CUL4-associated factor 6 isoform X9

See identical proteins and their annotated locations for XP_006250260.1

UniProtKB/TrEMBL

A0A8I5ZQH9

Conserved Domains (3) summary

COG2319
Location:42 → 281

WD40; WD40 repeat [General function prediction only]

sd00039
Location:55 → 92

7WD40; WD40 repeat [structural motif]

cl02567
Location:43 → 292

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_006250197.5 → XP_006250259.1 DDB1- and CUL4-associated factor 6 isoform X7

See identical proteins and their annotated locations for XP_006250259.1

UniProtKB/TrEMBL

A0A8I5ZQH9, A0A8I5ZSR3

Related

ENSRNOP00000081342.1, ENSRNOT00000117589.2

Conserved Domains (3) summary

COG2319
Location:42 → 281

WD40; WD40 repeat [General function prediction only]

sd00039
Location:55 → 92

7WD40; WD40 repeat [structural motif]

cl02567
Location:43 → 292

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_006250201.5 → XP_006250263.1 DDB1- and CUL4-associated factor 6 isoform X6

See identical proteins and their annotated locations for XP_006250263.1

UniProtKB/TrEMBL

A0A8I5ZQH9

Related

ENSRNOP00000105578.1, ENSRNOT00000159488.1

Conserved Domains (4) summary

COG2319
Location:42 → 281

WD40; WD40 repeat [General function prediction only]

pfam07010
Location:376 → 531

Endomucin; Endomucin

sd00039
Location:55 → 92

7WD40; WD40 repeat [structural motif]

cl02567
Location:43 → 292

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_006250196.5 → XP_006250258.1 DDB1- and CUL4-associated factor 6 isoform X5

See identical proteins and their annotated locations for XP_006250258.1

UniProtKB/TrEMBL

A0A8I5ZQH9

Conserved Domains (3) summary

COG2319
Location:42 → 281

WD40; WD40 repeat [General function prediction only]

sd00039
Location:55 → 92

7WD40; WD40 repeat [structural motif]

cl02567
Location:43 → 292

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_063272118.1 → XP_063128188.1 DDB1- and CUL4-associated factor 6 isoform X4

UniProtKB/TrEMBL

A0A8I5ZQH9
XM_006250195.5 → XP_006250257.1 DDB1- and CUL4-associated factor 6 isoform X3

See identical proteins and their annotated locations for XP_006250257.1

UniProtKB/TrEMBL

A0A8I5ZQH9

Conserved Domains (3) summary

COG2319
Location:42 → 281

WD40; WD40 repeat [General function prediction only]

sd00039
Location:55 → 92

7WD40; WD40 repeat [structural motif]

cl02567
Location:43 → 292

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_006250194.5 → XP_006250256.1 DDB1- and CUL4-associated factor 6 isoform X2

See identical proteins and their annotated locations for XP_006250256.1

UniProtKB/TrEMBL

A0A8I5Y6I7, A0A8I5ZQH9

Related

ENSRNOP00000076918.1, ENSRNOT00000099982.2

Conserved Domains (3) summary

COG2319
Location:42 → 281

WD40; WD40 repeat [General function prediction only]

sd00039
Location:55 → 92

7WD40; WD40 repeat [structural motif]

cl02567
Location:43 → 292

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_213926.11 → XP_213926.5 DDB1- and CUL4-associated factor 6 isoform X1

See identical proteins and their annotated locations for XP_213926.5

UniProtKB/TrEMBL

A0A8I5ZQH9, D4A8L4

Related

ENSRNOP00000004199.5, ENSRNOT00000004199.9

Conserved Domains (3) summary

COG2319
Location:42 → 281

WD40; WD40 repeat [General function prediction only]

sd00039
Location:55 → 92

7WD40; WD40 repeat [structural motif]

cl02567
Location:43 → 292

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_063272119.1 → XP_063128189.1 DDB1- and CUL4-associated factor 6 isoform X10

UniProtKB/TrEMBL

A0A8I5ZQH9
XM_039090500.2 → XP_038946428.1 DDB1- and CUL4-associated factor 6 isoform X8

UniProtKB/TrEMBL

A0A8I5ZQH9

Conserved Domains (3) summary

PHA03307
Location:323 → 773

PHA03307; transcriptional regulator ICP4; Provisional

sd00039
Location:55 → 92

7WD40; WD40 repeat [structural motif]

cl29593
Location:43 → 292

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 ...