Atrn attractin [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Atrnprovided by RGD
Official Full Name: attractinprovided by RGD
Primary source: RGD:69063
See related: EnsemblRapid:ENSRNOG00000021240 AllianceGenome:RGD:69063
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: Predicted to enable Notch binding activity and signaling receptor activity. Involved in pigmentation and response to oxidative stress. Predicted to be located in extracellular space. Orthologous to human ATRN (attractin). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Liver (RPKM 415.8), Brain (RPKM 323.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q36

Exon count:: 29

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (138563271..138697360)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (118110320..118244326)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (123434409..123567922)

Chromosome 3 - NC_086021.1 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?

Mutation of the attractin gene impairs working memory in rats.
Title: Mutation of the attractin gene impairs working memory in rats.
This study indicated that myelinogenesis but not oligodendrogenesis is severely altered both in the white and gray matter of attractin-deficient mv rats.
Title: Abnormal myelinogenesis both in the white and gray matter of the attractin-deficient mv rat.
Attractin defects result in oligodendrocyte dysfunction, and is associated with astrogliosis and microglial activation in mutant rats; attractin may be directly involved in the function of oligodendrocytes in CNS myelination.
Title: Cellular responses in the spinal cord during development of hypomyelination in the mv rat.
Atrn is more widely expressed throughout the CNS than previously reported, and expression of Atrn by various cell types suggests that Atrn may serve multiple functions in the CNS.
Title: Attractin/mahogany protein expression in the rodent central nervous system.
There is myelin vacuolation in rats with a null mutation in the gene.
Title: The myelin vacuolation (mv) rat with a null mutation in the attractin gene.
Lack of Attractin gene expression induced neurodegeneration by a decrease in active ERK through an intracellular signaling via oxidative stress.
Title: Pivotal role of attractin in cell survival under oxidative stress in the zitter rat brain with genetic spongiform encephalopathy.

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General gene information

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Markers

BF392025 (e-PCR)
- UniSTS:243458

RH131001 (e-PCR)
- UniSTS:214284

RH131613 (e-PCR)
- UniSTS:214896

PMC14626P1 (e-PCR)
- UniSTS:271006

AI101364 (e-PCR)
- UniSTS:250285

d3rat160 (e-PCR)
- UniSTS:121821

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables Notch binding	IBA Inferred from Biological aspect of Ancestor more info
enables carbohydrate binding	IEA Inferred from Electronic Annotation more info
enables signaling receptor activity	IEA Inferred from Electronic Annotation more info
enables signaling receptor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in cerebellum development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cerebellum development	ISO Inferred from Sequence Orthology more info
involved_in inflammatory response	IEA Inferred from Electronic Annotation more info
involved_in myelination	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within myelination	ISO Inferred from Sequence Orthology more info
involved_in pigmentation	IEA Inferred from Electronic Annotation more info
involved_in pigmentation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within pigmentation	ISO Inferred from Sequence Orthology more info
involved_in regulation of multicellular organism growth	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of multicellular organism growth	ISO Inferred from Sequence Orthology more info
involved_in response to oxidative stress	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in extracellular space	IEA Inferred from Electronic Annotation more info
located_in extracellular space	ISO Inferred from Sequence Orthology more info
located_in extracellular space	ISS Inferred from Sequence or Structural Similarity more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: attractin

Names: membrane attractin; protein zitter

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_031351.2 → NP_112641.1 attractin precursor

See identical proteins and their annotated locations for NP_112641.1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000003

UniProtKB/Swiss-Prot

Q99J86, Q99PW0

UniProtKB/TrEMBL

A0A8I6AUX0, A6HQB3

Related

ENSRNOP00000028847.5, ENSRNOT00000028847.6

Conserved Domains (7) summary

cd00041
Location:135 → 250

CUB; CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast.

cd00055
Location:1065 → 1110

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

sd00038
Location:504 → 553

Kelch; KELCH repeat [structural motif]

pfam01344
Location:343 → 382

Kelch_1; Kelch motif

pfam01437
Location:935 → 986

PSI; Plexin repeat

pfam13854
Location:393 → 431

Kelch_5; Kelch motif

cl02432
Location:791 → 923

CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain