Olfm3 olfactomedin 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Olfm3provided by RGD
Official Full Name: olfactomedin 3provided by RGD
Primary source: RGD:628672
See related: EnsemblRapid:ENSRNOG00000017969 AllianceGenome:RGD:628672
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
Summary: Involved in eye photoreceptor cell development. Predicted to be located in Golgi apparatus. Predicted to be part of AMPA glutamate receptor complex. Predicted to be active in extracellular space. Orthologous to human OLFM3 (olfactomedin 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Restricted expression toward (RPKM 238.2) See more
Orthologs: human mouse all
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Genomic context

Location:: 2q42

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (205417962..205640479)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (202729610..202952120)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (217779983..218005710)

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 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?

Pax6 regulation of Optimedin in the eye and brain may directly affect multiple developmental processes, including cell migration and axon growth
Title: The Optimedin gene is a downstream target of Pax6.

Submit: New GeneRIF Correction

General gene information

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Markers

Olfm3 (e-PCR), detects polymorphism
- UniSTS:534581

Olfm3 (e-PCR), detects polymorphism
- UniSTS:534582

RH132211 (e-PCR)
- UniSTS:215494

Gene Ontology Provided by RGD

Process	Evidence Code	Pubs
involved_in eye photoreceptor cell development	IDA Inferred from Direct Assay more info	PubMed
involved_in signal transduction	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of AMPA glutamate receptor complex	ISO Inferred from Sequence Orthology more info
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
located_in extracellular region	IEA Inferred from Electronic Annotation more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular space	ISO Inferred from Sequence Orthology more info
located_in synapse	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: noelin-3

Names: optimedin

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_145777.2 → NP_665720.1 noelin-3 precursor

See identical proteins and their annotated locations for NP_665720.1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

P63057, Q8BKV2, Q8BLL6, Q8QZW0, Q8R4K3, Q8R4K4

UniProtKB/TrEMBL

A6HV76

Related

ENSRNOP00000024243.3, ENSRNOT00000024243.7

Conserved Domains (3) summary

PRK03918
Location:81 → 217

PRK03918; DNA double-strand break repair ATPase Rad50

pfam02191
Location:222 → 466

OLF; Olfactomedin-like domain

pfam12308
Location:46 → 145

Noelin-1; Neurogenesis glycoprotein

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

205417962..205640479

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017590639.3 → XP_017446128.1 noelin-3 isoform X1

UniProtKB/TrEMBL

A0A8I5ZW11, A6HV75

Conserved Domains (3) summary

PRK03918
Location:61 → 197

PRK03918; DNA double-strand break repair ATPase Rad50

pfam02191
Location:202 → 446

OLF; Olfactomedin-like domain

pfam12308
Location:26 → 125

Noelin-1; Neurogenesis glycoprotein