Depdc1 DEP domain containing 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Depdc1provided by RGD
Official Full Name: DEP domain containing 1provided by RGD
Primary source: RGD:1306987
See related: EnsemblRapid:ENSRNOG00000009503 AllianceGenome:RGD:1306987
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: Depdc1a
Summary: Predicted to be involved in negative regulation of DNA-templated transcription. Predicted to be part of transcription repressor complex. Predicted to be active in nucleus. Orthologous to human DEPDC1 (DEP domain containing 1). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Thymus (RPKM 141.2), Spleen (RPKM 73.8) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q45

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (251343250..251376709)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (248684508..248717951)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (264704738..264738265)

Chromosome 2 - NC_086020.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

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General gene information

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Gene Ontology Provided by RGD

Process	Evidence Code	Pubs
involved_in intracellular signal transduction	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of transcription repressor complex	IBA Inferred from Biological aspect of Ancestor more info
part_of transcription repressor complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: DEP domain-containing protein 1A

Names: DEP domain containing 1a

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_001305205.1 → NP_001292134.1 DEP domain-containing protein 1A

See identical proteins and their annotated locations for NP_001292134.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/TrEMBL

A6HWU4, D3ZGJ9

Related

ENSRNOP00000012667.6, ENSRNOT00000012667.10

Conserved Domains (3) summary

cd04405
Location:182 → 309

RhoGAP_BRCC3-like; RhoGAP_BRCC3-like: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of BRCC3-like proteins. This subgroup also contains two groups of closely related proteins, BRCC3 and DEPDC7, which both contain a C-terminal RhoGAP-like domain ...

cd04447
Location:15 → 106

DEP_BRCC3; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in BBRC3-like proteins. BBRC3, also known as DEPDC1B, is a DEP containing protein of unknown function.

cl02570
Location:579 → 687

RhoGAP; RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when ...

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_086020.1 Reference GRCr8

Range

251343250..251376709

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006233537.5 → XP_006233599.1 DEP domain-containing protein 1A isoform X1

See identical proteins and their annotated locations for XP_006233599.1

UniProtKB/TrEMBL

A0A8I6AEC2, A6HWU5

Related

ENSRNOP00000090441.1, ENSRNOT00000118417.2

Conserved Domains (2) summary

cd04405
Location:182 → 407

RhoGAP_BRCC3-like; RhoGAP_BRCC3-like: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of BRCC3-like proteins. This subgroup also contains two groups of closely related proteins, BRCC3 and DEPDC7, which both contain a C-terminal RhoGAP-like domain ...

cl02442
Location:15 → 106

DEP; DEP domain, named after Dishevelled, Egl-10, and Pleckstrin, where this domain was first discovered. The function of this domain is still not clear, but it is believed to be important for the membrane association of the signaling proteins in which it is ...