Nbea neurobeachin [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Nbeaprovided by RGD
Full Name: neurobeachinprovided by RGD
Primary source: RGD:1562629
See related: EnsemblRapid:ENSRNOG00000065312 AllianceGenome:RGD:1562629
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: RGD1562629
Summary: Predicted to enable protein kinase binding activity. Predicted to be involved in regulation of neurotransmitter receptor localization to postsynaptic specialization membrane and synapse organization. Predicted to act upstream of or within hematopoietic stem cell homeostasis and protein localization. Is active in GABA-ergic synapse and cerebellar Golgi cell to granule cell synapse. Is extrinsic component of postsynaptic membrane. Orthologous to human NBEA (neurobeachin). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Brain (RPKM 312.6), Lung (RPKM 150.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q26

Exon count:: 62

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (141930147..142489172, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (139780021..140338639, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (145011648..145513439, complement)

Chromosome 2 - NC_086020.1 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?

these data are consistent with roles of Vps35 and Nbea in the retrieval and post-Golgi trafficking of synaptic glycine receptor beta-subunit and possibly other neurotransmitter receptors.
Title: The trafficking proteins Vacuolar Protein Sorting 35 and Neurobeachin interact with the glycine receptor β-subunit.

Submit: New GeneRIF Correction

General gene information

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Markers

BF405211 (e-PCR)
- UniSTS:247829

BE107802 (e-PCR)
- UniSTS:247077

Nbea (e-PCR), detects polymorphism
- UniSTS:507954

Nbea (e-PCR), detects polymorphism
- UniSTS:507956

BF394609 (e-PCR)
- UniSTS:244806

d2rat222 (e-PCR)
- UniSTS:121676

BE104314 (e-PCR)
- UniSTS:245334

BF415673 (e-PCR)
- UniSTS:248940

T03409 (e-PCR)
- UniSTS:71038

AW047968 (e-PCR)
- UniSTS:165254

D2Rat373 (e-PCR), detects polymorphism
- UniSTS:227507

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables protein kinase binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein kinase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within hematopoietic stem cell homeostasis	ISO Inferred from Sequence Orthology more info
involved_in protein localization	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within protein localization	ISO Inferred from Sequence Orthology more info
involved_in regulation of neurotransmitter receptor localization to postsynaptic specialization membrane	ISO Inferred from Sequence Orthology more info
involved_in synapse organization	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in GABA-ergic synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in cerebellar Golgi cell to granule cell synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in endomembrane system	ISO Inferred from Sequence Orthology more info
is_active_in extrinsic component of postsynaptic membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
is_active_in membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in trans-Golgi network	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: neurobeachin

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_001427608.1 → NP_001414537.1 neurobeachin

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/TrEMBL

A0A8I6AP41, A6JVF6

Related

ENSRNOP00000089082.2, ENSRNOT00000110270.2

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

141930147..142489172 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063282102.1 → XP_063138172.1 neurobeachin isoform X6

UniProtKB/TrEMBL

A6JVF6
XM_063282100.1 → XP_063138170.1 neurobeachin isoform X3

UniProtKB/TrEMBL

A0A8I6AK76
XM_039103982.2 → XP_038959910.1 neurobeachin isoform X5

UniProtKB/TrEMBL

A6JVF6

Conserved Domains (7) summary

sd00039
Location:2708 → 2762

7WD40; WD40 repeat [structural motif]

pfam02138
Location:2276 → 2552

Beach; Beige/BEACH domain

pfam06469
Location:1955 → 2121

DUF1088; Domain of Unknown Function (DUF1088)

pfam14844
Location:2147 → 2244

PH_BEACH; PH domain associated with Beige/BEACH

pfam15787
Location:469 → 729

DUF4704; Domain of unknown function (DUF4704)

cl22861
Location:247 → 394

LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

cl29593
Location:2661 → 2918

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_039103983.2 → XP_038959911.1 neurobeachin isoform X4

UniProtKB/TrEMBL

A0A8I6AB61, A6JVF6

Conserved Domains (7) summary

sd00039
Location:2713 → 2767

7WD40; WD40 repeat [structural motif]

pfam02138
Location:2276 → 2552

Beach; Beige/BEACH domain

pfam06469
Location:1955 → 2121

DUF1088; Domain of Unknown Function (DUF1088)

pfam14844
Location:2147 → 2244

PH_BEACH; PH domain associated with Beige/BEACH

pfam15787
Location:469 → 729

DUF4704; Domain of unknown function (DUF4704)

cl22861
Location:247 → 394

LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

cl29593
Location:2666 → 2923

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_063282099.1 → XP_063138169.1 neurobeachin isoform X2

UniProtKB/TrEMBL

A0A8I6AK76
XM_039103975.2 → XP_038959903.1 neurobeachin isoform X1

UniProtKB/TrEMBL

A0A8I6AK76

Related

ENSRNOP00000095310.2, ENSRNOT00000106419.2

Conserved Domains (7) summary

sd00039
Location:2734 → 2788

7WD40; WD40 repeat [structural motif]

pfam02138
Location:2276 → 2573

Beach; Beige/BEACH domain

pfam06469
Location:1955 → 2121

DUF1088; Domain of Unknown Function (DUF1088)

pfam14844
Location:2147 → 2244

PH_BEACH; PH domain associated with Beige/BEACH

pfam15787
Location:469 → 729

DUF4704; Domain of unknown function (DUF4704)

cl22861
Location:247 → 394

LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

cl29593
Location:2687 → 2944

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_063282103.1 → XP_063138173.1 neurobeachin isoform X7

UniProtKB/TrEMBL

A6JVF6
XM_063282104.1 → XP_063138174.1 neurobeachin isoform X8