Homer3 homer scaffold protein 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Homer3provided by RGD
Official Full Name: homer scaffold protein 3provided by RGD
Primary source: RGD:620706
See related: EnsemblRapid:ENSRNOG00000020229 AllianceGenome:RGD:620706
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Vesl-3
Summary: Predicted to enable G protein-coupled glutamate receptor binding activity; identical protein binding activity; and protein domain specific binding activity. Predicted to be involved in several processes, including G protein-coupled glutamate receptor signaling pathway; negative regulation of interleukin-2 production; and regulation of signal transduction. Predicted to be located in basal part of cell and cytosol. Predicted to be active in several cellular components, including dendrite; glutamatergic synapse; and postsynaptic density. Orthologous to human HOMER3 (homer scaffold protein 3). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Lung (RPKM 88.9), Adrenal (RPKM 88.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 16p14

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	16	NC_086034.1 (19166141..19176701, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	16	NC_051351.1 (19132177..19142739, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	16	NC_005115.4 (20880447..20890968, complement)

Chromosome 16 - NC_086034.1 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?

The acute foodshake-stress induced reduction of Homer3 mRNA levels compared to sham animals at the same time point that was prevented by chronic treatment with desipramine.
Title: The expression of plasticity-related genes in an acute model of stress is modulated by chronic desipramine in a time-dependent manner within medial prefrontal cortex.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH141855 (e-PCR)
- UniSTS:223847

RH137541 (e-PCR)
- UniSTS:219629

RH128901 (e-PCR)
- UniSTS:212209

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables G protein-coupled glutamate receptor binding	IBA Inferred from Biological aspect of Ancestor more info
enables G protein-coupled glutamate receptor binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables protein domain specific binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in G protein-coupled glutamate receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in G protein-coupled glutamate receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of calcineurin-NFAT signaling cascade	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of calcineurin-NFAT signaling cascade	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of calcineurin-NFAT signaling cascade	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of interleukin-2 production	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of interleukin-2 production	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of interleukin-2 production	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of postsynaptic neurotransmitter receptor activity	ISO Inferred from Sequence Orthology more info
involved_in regulation of store-operated calcium entry	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in basal part of cell	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
is_active_in dendrite	IBA Inferred from Biological aspect of Ancestor more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
is_active_in postsynaptic density	IBA Inferred from Biological aspect of Ancestor more info
located_in postsynaptic density	IEA Inferred from Electronic Annotation more info
is_active_in postsynaptic density	ISO Inferred from Sequence Orthology more info
located_in postsynaptic density	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: homer protein homolog 3

Names: VASP/Ena-related gene up-regulated during seizure and LTP 3; homer homolog 3; homer scaffolding protein 3; homer, neuronal immediate early gene, 3; homer-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_053310.1 → NP_445762.1 homer protein homolog 3

See identical proteins and their annotated locations for NP_445762.1

Status: PROVISIONAL

Source sequence(s)

AB020879

UniProtKB/Swiss-Prot

Q9Z2X5

UniProtKB/TrEMBL

A6KA67

Conserved Domains (1) summary

cd01206
Location:6 → 114

EVH1_Homer_Vesl; Homer/Vesl family proteins EVH1 domain

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_086034.1 Reference GRCr8

Range

19166141..19176701 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006252890.5 → XP_006252952.1 homer protein homolog 3 isoform X1

UniProtKB/TrEMBL

A0A8I6AJC0

Related

ENSRNOP00000093275.1, ENSRNOT00000108210.2

Conserved Domains (1) summary

cd01206
Location:6 → 114

EVH1_Homer_Vesl; Homer/Vesl family proteins EVH1 domain
XM_039094433.2 → XP_038950361.1 homer protein homolog 3 isoform X7

UniProtKB/TrEMBL

A0A8L2QEN4

Related

ENSRNOP00000027428.5, ENSRNOT00000027428.7

Conserved Domains (2) summary

cd01206
Location:6 → 114

EVH1_Homer_Vesl; Homer/Vesl family proteins EVH1 domain

TIGR02168
Location:95 → 312

SMC_prok_B; chromosome segregation protein SMC, common bacterial type
XM_006252891.5 → XP_006252953.1 homer protein homolog 3 isoform X4

See identical proteins and their annotated locations for XP_006252953.1

UniProtKB/Swiss-Prot

Q9Z2X5

UniProtKB/TrEMBL

A6KA67

Conserved Domains (1) summary

cd01206
Location:6 → 114

EVH1_Homer_Vesl; Homer/Vesl family proteins EVH1 domain
XM_039094432.2 → XP_038950360.1 homer protein homolog 3 isoform X6

Conserved Domains (2) summary

COG1196
Location:150 → 322

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

cd01206
Location:6 → 114

EVH1_Homer_Vesl; Homer/Vesl family proteins EVH1 domain
XM_008771095.4 → XP_008769317.1 homer protein homolog 3 isoform X3

Conserved Domains (1) summary

cd01206
Location:6 → 114

EVH1_Homer_Vesl; Homer/Vesl family proteins EVH1 domain
XM_039094431.2 → XP_038950359.1 homer protein homolog 3 isoform X5

Conserved Domains (2) summary

COG1196
Location:150 → 328

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

cd01206
Location:6 → 114

EVH1_Homer_Vesl; Homer/Vesl family proteins EVH1 domain
XM_008771094.4 → XP_008769316.1 homer protein homolog 3 isoform X2

UniProtKB/TrEMBL

A0A8I6AH27

Related

ENSRNOP00000091926.1, ENSRNOT00000098457.2

Conserved Domains (1) summary

cd01206
Location:6 → 114

EVH1_Homer_Vesl; Homer/Vesl family proteins EVH1 domain
XM_063275272.1 → XP_063131342.1 homer protein homolog 3 isoform X4

UniProtKB/Swiss-Prot

Q9Z2X5

UniProtKB/TrEMBL

A6KA67