Gpm6b glycoprotein m6b [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Gpm6bprovided by RGD
Official Full Name: glycoprotein m6bprovided by RGD
Primary source: RGD:620580
See related: Ensembl:ENSRNOG00000004613 AllianceGenome:RGD:620580
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: M6b
Summary: Predicted to be involved in several processes, including negative regulation of protein localization to cell surface; negative regulation of serotonin uptake; and positive regulation of bone mineralization. Predicted to be integral component of membrane. Predicted to be active in membrane raft and plasma membrane. Orthologous to human GPM6B (glycoprotein M6B). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 1210.7), Lung (RPKM 128.3) and 4 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: Xq13-q14

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	X	NC_086039.1 (31689485..31836199, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	X	NC_051356.1 (28057788..28204409, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	X	NC_005120.4 (29604607..29751174, complement)

Chromosome X - NC_086039.1 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?

Study identified glycoprotein M6B as a Schwann cell microvilli component of peripheral nodes of Ranvier. Study detected Na(+) channel clusters at heminodes without any associated M6B, indicating that it is not required for initial channel clustering; showed that absence of M6B results in progressive appearance of nodal protrusions of the nodal axolemma, that are often accompanied by the presence of enlarged mitochondria.
Title: Glial M6B stabilizes the axonal membrane at peripheral nodes of Ranvier.

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

RH138360 (e-PCR)
- UniSTS:220447

RH133686 (e-PCR)
- UniSTS:216969

GPM6B (e-PCR)
- UniSTS:506516

DXRAT108 (e-PCR)
- UniSTS:122583

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables structural constituent of myelin sheath	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in axon development	IBA Inferred from Biological aspect of Ancestor more info
involved_in central nervous system myelination	IBA Inferred from Biological aspect of Ancestor more info
involved_in extracellular matrix assembly	ISO Inferred from Sequence Orthology more info
involved_in extracellular matrix assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of protein localization to cell surface	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of protein localization to cell surface	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of serotonin uptake	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of serotonin uptake	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of serotonin uptake	ISS Inferred from Sequence or Structural Similarity more info
involved_in ossification	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of bone mineralization	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of bone mineralization	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein transport	IEA Inferred from Electronic Annotation more info
involved_in regulation of actin cytoskeleton organization	ISO Inferred from Sequence Orthology more info
involved_in regulation of actin cytoskeleton organization	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of focal adhesion assembly	ISO Inferred from Sequence Orthology more info
involved_in regulation of focal adhesion assembly	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in membrane raft	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane raft	ISO Inferred from Sequence Orthology more info
located_in membrane raft	ISS Inferred from Sequence or Structural Similarity more info
is_active_in myelin sheath	IBA Inferred from Biological aspect of Ancestor more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: neuronal membrane glycoprotein M6-b

Names: Rhombex-29; rhombencephalic expression protein-29 kDa

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_138846.2 → NP_620201.2 neuronal membrane glycoprotein M6-b

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000021

UniProtKB/Swiss-Prot

Q9JJK1

UniProtKB/TrEMBL

A6K2I9, E9PSV8

Related

ENSRNOP00000006777.5, ENSRNOT00000006777.6

Conserved Domains (1) summary

pfam01275
Location:22 → 258

Myelin_PLP; Myelin proteolipid protein (PLP or lipophilin)

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_086039.1 Reference GRCr8

Range

31689485..31836199 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017601904.3 → XP_017457393.1 neuronal membrane glycoprotein M6-b isoform X4

UniProtKB/TrEMBL

A6K2I8

Conserved Domains (1) summary

pfam01275
Location:43 → 279

Myelin_PLP; Myelin proteolipid protein (PLP or lipophilin)
XM_008773151.3 → XP_008771373.1 neuronal membrane glycoprotein M6-b isoform X9

See identical proteins and their annotated locations for XP_008771373.1

UniProtKB/TrEMBL

A6K2I4, A6K2I8

Conserved Domains (1) summary

pfam01275
Location:3 → 239

Myelin_PLP; Myelin proteolipid protein (PLP or lipophilin)
XM_063279771.1 → XP_063135841.1 neuronal membrane glycoprotein M6-b isoform X8

UniProtKB/Swiss-Prot

Q9JJK1
XM_006256851.5 → XP_006256913.1 neuronal membrane glycoprotein M6-b isoform X7

See identical proteins and their annotated locations for XP_006256913.1

UniProtKB/TrEMBL

A6K2I6, A6K2I8

Conserved Domains (1) summary

pfam01275
Location:22 → 258

Myelin_PLP; Myelin proteolipid protein (PLP or lipophilin)
XM_063279772.1 → XP_063135842.1 neuronal membrane glycoprotein M6-b isoform X10

UniProtKB/Swiss-Prot

Q9JJK1
XM_006256849.4 → XP_006256911.1 neuronal membrane glycoprotein M6-b isoform X1

See identical proteins and their annotated locations for XP_006256911.1

UniProtKB/TrEMBL

A0A0G2JZB8, A6K2I7, A6K2I8

Related

ENSRNOP00000070988.2

Conserved Domains (1) summary

pfam01275
Location:62 → 298

Myelin_PLP; Myelin proteolipid protein (PLP or lipophilin)
XM_006256850.5 → XP_006256912.1 neuronal membrane glycoprotein M6-b isoform X3

See identical proteins and their annotated locations for XP_006256912.1

UniProtKB/Swiss-Prot

Q9JJK1

UniProtKB/TrEMBL

A0A8I6A9L3, A6K2J0

Related

ENSRNOP00000090200.1

Conserved Domains (1) summary

pfam01275
Location:62 → 298

Myelin_PLP; Myelin proteolipid protein (PLP or lipophilin)
XM_063279770.1 → XP_063135840.1 neuronal membrane glycoprotein M6-b isoform X5

UniProtKB/Swiss-Prot

Q9JJK1
XM_039099441.2 → XP_038955369.1 neuronal membrane glycoprotein M6-b isoform X2

UniProtKB/TrEMBL

A6K2I8

Conserved Domains (1) summary

pfam01275
Location:48 → 284

Myelin_PLP; Myelin proteolipid protein (PLP or lipophilin)
XM_063279773.1 → XP_063135843.1 neuronal membrane glycoprotein M6-b isoform X11

UniProtKB/Swiss-Prot

Q9JJK1
XM_039099442.2 → XP_038955370.1 neuronal membrane glycoprotein M6-b isoform X6

UniProtKB/Swiss-Prot

Q9JJK1

Conserved Domains (1) summary

pfam01275
Location:62 → 280

Myelin_PLP; Myelin proteolipid protein (PLP or lipophilin)