Agap3 ArfGAP with GTPase domain, ankyrin repeat and PH domain 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Agap3provided by RGD
Official Full Name: ArfGAP with GTPase domain, ankyrin repeat and PH domain 3provided by RGD
Primary source: RGD:1310751
See related: EnsemblRapid:ENSRNOG00000012764 AllianceGenome:RGD:1310751
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: Centg3
Summary: Predicted to enable GTPase activator activity; GTPase activity; and polyubiquitin modification-dependent protein binding activity. Involved in regulation of postsynaptic membrane neurotransmitter receptor levels. Is active in glutamatergic synapse and postsynaptic density. Orthologous to human AGAP3 (ArfGAP with GTPase domain, ankyrin repeat and PH domain 3). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Brain (RPKM 71.5), Lung (RPKM 55.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 4q11

Exon count:: 23

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (11567191..11617610, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (10674746..10724848, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (7202330..7253386, complement)

Chromosome 4 - NC_086022.1 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?

Novelty-induced memory consolidation is accompanied by increased Agap3 transcription: a cross-species study.
Title: Novelty-induced memory consolidation is accompanied by increased Agap3 transcription: a cross-species study.

Submit: New GeneRIF Correction

General gene information

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Markers

D4Got15 (e-PCR)
- UniSTS:115226

AV028425 (e-PCR)
- UniSTS:164277

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables GTP binding	IEA Inferred from Electronic Annotation more info
enables GTPase activator activity	IBA Inferred from Biological aspect of Ancestor more info
enables GTPase activity	IBA Inferred from Biological aspect of Ancestor more info
enables GTPase activity	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables polyubiquitin modification-dependent protein binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cellular response to reactive oxygen species	ISO Inferred from Sequence Orthology more info
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within proteasome-mediated ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein import into nucleus	ISO Inferred from Sequence Orthology more info
involved_in regulation of postsynaptic membrane neurotransmitter receptor levels	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of postsynaptic membrane neurotransmitter receptor levels	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cell periphery	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IMP Inferred from Mutant Phenotype more info	PubMed
located_in neuron projection	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
is_active_in postsynaptic density	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3

Names: centaurin, gamma 3

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_001398853.1 → NP_001385782.1 arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000004

UniProtKB/TrEMBL

U6A022

Related

ENSRNOP00000070947.3, ENSRNOT00000087120.3

Conserved Domains (5) summary

cd04103
Location:127 → 284

Centaurin_gamma; Centaurin gamma (CENTG) GTPase

cd01250
Location:400 → 542

PH_AGAP; Arf-GAP with GTPase, ANK repeat and PH domain-containing protein Pleckstrin homology (PH) domain

sd00045
Location:686 → 716

ANK; ANK repeat [structural motif]

cd08855
Location:558 → 667

ArfGap_AGAP3; ArfGAP with GTPase domain, ANK repeat and PH domain 3

pfam12796
Location:686 → 776

Ank_2; Ankyrin repeats (3 copies)

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_086022.1 Reference GRCr8

Range

11567191..11617610 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006235941.5 → XP_006236003.1 arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X4

UniProtKB/TrEMBL

A0A0G2K2D4, U6A022

Related

ENSRNOP00000072199.2, ENSRNOT00000084777.3

Conserved Domains (8) summary

cd04103
Location:127 → 284

Centaurin_gamma; Centaurin gamma (CENTG) GTPase

smart00010
Location:125 → 290

small_GTPase; Small GTPase of the Ras superfamily; ill-defined subfamily

cd00204
Location:787 → 876

ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...

cd01250
Location:400 → 643

PH_AGAP; Arf-GAP with GTPase, ANK repeat and PH domain-containing protein Pleckstrin homology (PH) domain

pfam00169
Location:403 → 464

PH; PH domain

pfam01412
Location:671 → 776

ArfGap; Putative GTPase activating protein for Arf

pfam12796
Location:787 → 877

Ank_2; Ankyrin repeats (3 copies)

sd00045
Location:787 → 817

ANK; ANK repeat [structural motif]
XM_008762650.4 → XP_008760872.2 arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X12

UniProtKB/TrEMBL

U6A022
XM_006235938.5 → XP_006236000.1 arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X1

Conserved Domains (8) summary

cd04103
Location:311 → 468

Centaurin_gamma; Centaurin gamma (CENTG) GTPase

smart00010
Location:309 → 474

small_GTPase; Small GTPase of the Ras superfamily; ill-defined subfamily

cd00204
Location:971 → 1060

ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...

cd01250
Location:584 → 827

PH_AGAP; Arf-GAP with GTPase, ANK repeat and PH domain-containing protein Pleckstrin homology (PH) domain

pfam00169
Location:587 → 648

PH; PH domain

pfam01412
Location:855 → 960

ArfGap; Putative GTPase activating protein for Arf

pfam12796
Location:971 → 1061

Ank_2; Ankyrin repeats (3 copies)

sd00045
Location:971 → 1001

ANK; ANK repeat [structural motif]
XM_006235940.5 → XP_006236002.1 arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X3

UniProtKB/TrEMBL

A0A8I5Y9H3

Conserved Domains (8) summary

cd04103
Location:311 → 468

Centaurin_gamma; Centaurin gamma (CENTG) GTPase

smart00010
Location:309 → 474

small_GTPase; Small GTPase of the Ras superfamily; ill-defined subfamily

cd00204
Location:870 → 959

ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...

cd01250
Location:584 → 726

PH_AGAP; Arf-GAP with GTPase, ANK repeat and PH domain-containing protein Pleckstrin homology (PH) domain

pfam00169
Location:587 → 721

PH; PH domain

pfam01412
Location:754 → 859

ArfGap; Putative GTPase activating protein for Arf

pfam12796
Location:870 → 960

Ank_2; Ankyrin repeats (3 copies)

sd00045
Location:870 → 900

ANK; ANK repeat [structural motif]
XM_006235939.5 → XP_006236001.1 arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X2

Conserved Domains (8) summary

cd04103
Location:311 → 468

Centaurin_gamma; Centaurin gamma (CENTG) GTPase

smart00010
Location:309 → 474

small_GTPase; Small GTPase of the Ras superfamily; ill-defined subfamily

cd00204
Location:925 → 1014

ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...

cd01250
Location:584 → 781

PH_AGAP; Arf-GAP with GTPase, ANK repeat and PH domain-containing protein Pleckstrin homology (PH) domain

pfam00169
Location:587 → 648

PH; PH domain

pfam01412
Location:809 → 914

ArfGap; Putative GTPase activating protein for Arf

pfam12796
Location:925 → 1015

Ank_2; Ankyrin repeats (3 copies)

sd00045
Location:925 → 955

ANK; ANK repeat [structural motif]
XM_039107750.2 → XP_038963678.1 arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X10

UniProtKB/TrEMBL

A6K545

Conserved Domains (4) summary

cd01250
Location:55 → 197

PH_AGAP; Arf-GAP with GTPase, ANK repeat and PH domain-containing protein Pleckstrin homology (PH) domain

sd00045
Location:341 → 371

ANK; ANK repeat [structural motif]

cd08855
Location:213 → 322

ArfGap_AGAP3; ArfGAP with GTPase domain, ANK repeat and PH domain 3

pfam12796
Location:341 → 431

Ank_2; Ankyrin repeats (3 copies)
XM_039107748.2 → XP_038963676.1 arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X8

UniProtKB/TrEMBL

A6K545

Conserved Domains (5) summary

PHA03247
Location:122 → 252

PHA03247; large tegument protein UL36; Provisional

cd01250
Location:55 → 298

PH_AGAP; Arf-GAP with GTPase, ANK repeat and PH domain-containing protein Pleckstrin homology (PH) domain

sd00045
Location:442 → 472

ANK; ANK repeat [structural motif]

cl28907
Location:314 → 423

ArfGap; GTPase-activating protein (GAP) for the ADP ribosylation factors (ARFs)

pfam12796
Location:442 → 532

Ank_2; Ankyrin repeats (3 copies)
XM_039107749.2 → XP_038963677.1 arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X9

UniProtKB/TrEMBL

A6K545

Conserved Domains (4) summary

sd00045
Location:344 → 374

ANK; ANK repeat [structural motif]

cl28907
Location:216 → 325

ArfGap; GTPase-activating protein (GAP) for the ADP ribosylation factors (ARFs)

pfam12796
Location:344 → 434

Ank_2; Ankyrin repeats (3 copies)

cl17171
Location:1 → 200

PH-like; Pleckstrin homology-like domain
XM_063286226.1 → XP_063142296.1 arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X5
XM_006235943.5 → XP_006236005.1 arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X11

UniProtKB/TrEMBL

A0A0G2JZ83

Related

ENSRNOP00000100965.1, ENSRNOT00000171340.1

Conserved Domains (2) summary

cd04103
Location:127 → 284

Centaurin_gamma; Centaurin gamma (CENTG) GTPase

smart00010
Location:125 → 290

small_GTPase; Small GTPase of the Ras superfamily; ill-defined subfamily
XM_017592682.3 → XP_017448171.1 arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X7

UniProtKB/TrEMBL

G3V9Z5

Related

ENSRNOP00000063846.2, ENSRNOT00000064386.4
XM_063286227.1 → XP_063142297.1 arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3 isoform X6

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001108616.1: Suppressed sequence

Description

NM_001108616.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.