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RGMB repulsive guidance molecule BMP co-receptor b [ Homo sapiens (human) ]

Gene ID: 285704, updated on 12-Oct-2019

Summary

Official Symbol
RGMBprovided by HGNC
Official Full Name
repulsive guidance molecule BMP co-receptor bprovided by HGNC
Primary source
HGNC:HGNC:26896
See related
Ensembl:ENSG00000174136 MIM:612687
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
DRAGON
Summary
RGMB is a glycosylphosphatidylinositol (GPI)-anchored member of the repulsive guidance molecule family (see RGMA, MIM 607362) and contributes to the patterning of the developing nervous system (Samad et al., 2005 [PubMed 15671031]).[supplied by OMIM, Apr 2009]
Expression
Ubiquitous expression in brain (RPKM 10.1), skin (RPKM 10.1) and 24 other tissues See more
Orthologs

Genomic context

See RGMB in Genome Data Viewer
Location:
5q15
Exon count:
9
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 5 NC_000005.10 (98768632..98796494)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (98104999..98132198)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene CTBP2 pseudogene 4 Neighboring gene DEAD-box helicase 18 pseudogene 4 Neighboring gene RGMB antisense RNA 1 Neighboring gene uncharacterized LOC107986435 Neighboring gene uncharacterized LOC105379099 Neighboring gene casein kinase 1 alpha 1 pseudogene 3

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide association study in NSAID-induced acute urticaria/angioedema in Spanish and Han Chinese populations.
NHGRI GWA Catalog
Variants in several genomic regions associated with asperger disorder.
NHGRI GWA Catalog

Pathways from BioSystems

  • Axon guidance, organism-specific biosystem (from REACTOME)
    Axon guidance, organism-specific biosystemAxon guidance / axon pathfinding is the process by which neurons send out axons to reach the correct targets. Growing axons have a highly motile structure at the growing tip called the growth cone, w...
  • BMP receptor signaling, organism-specific biosystem (from Pathway Interaction Database)
    BMP receptor signaling, organism-specific biosystem
    BMP receptor signaling
  • Developmental Biology, organism-specific biosystem (from REACTOME)
    Developmental Biology, organism-specific biosystemAs a first step towards capturing the array of processes by which a fertilized egg gives rise to the diverse tissues of the body, examples of three kinds of processes have been annotated. These are a...
  • Netrin-1 signaling, organism-specific biosystem (from REACTOME)
    Netrin-1 signaling, organism-specific biosystemNetrins are secreted proteins that play a crucial role in neuronal migration and in axon guidance during the development of the nervous system. To date, several Netrins have been described in mouse a...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ90406, MGC86970, DKFZp434P228

Gene Ontology Provided by GOA

Function Evidence Code Pubs
coreceptor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
identical protein binding ISS
Inferred from Sequence or Structural Similarity
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
BMP signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
BMP signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
cell adhesion ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of transcription, DNA-templated ISS
Inferred from Sequence or Structural Similarity
more info
 
signal transduction ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
anchored component of plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
endoplasmic reticulum-Golgi intermediate compartment ISS
Inferred from Sequence or Structural Similarity
more info
 
membrane raft IEA
Inferred from Electronic Annotation
more info
 
plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
RGM domain family member B
Names
DRG11-responsive axonal guidance and outgrowth of neurite
RGM domain family, member B
repulsive guidance molecule B
repulsive guidance molecule family member b

NCBI Reference Sequences (RefSeq)

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)

  1. NM_001012761.3NP_001012779.2  RGM domain family member B isoform 2

    See identical proteins and their annotated locations for NP_001012779.2

    Status: VALIDATED

    Source sequence(s)
    AC008522, AK054622, BC020513, BC067736
    Consensus CDS
    CCDS47251.1
    UniProtKB/Swiss-Prot
    Q6NW40
    UniProtKB/TrEMBL
    J3KNF6
    Related
    ENSP00000308219.7, ENST00000308234.11
    Conserved Domains (2) summary
    pfam06534
    Location:267441
    RGM_C; Repulsive guidance molecule (RGM) C-terminus
    pfam06535
    Location:95262
    RGM_N; Repulsive guidance molecule (RGM) N-terminus
  2. NM_001366508.1NP_001353437.1  RGM domain family member B isoform 1 precursor

    Status: VALIDATED

    Source sequence(s)
    AC008522
    Related
    ENSP00000423256.1, ENST00000513185.3
    Conserved Domains (2) summary
    pfam06534
    Location:226400
    RGM_C; Repulsive guidance molecule (RGM) C-terminus
    pfam06535
    Location:54221
    RGM_N; Repulsive guidance molecule (RGM) N-terminus
  3. NM_001366509.1NP_001353438.1  RGM domain family member B isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC008522
    Conserved Domains (2) summary
    pfam06534
    Location:267441
    RGM_C; Repulsive guidance molecule (RGM) C-terminus
    pfam06535
    Location:95262
    RGM_N; Repulsive guidance molecule (RGM) N-terminus
  4. NM_001366510.1NP_001353439.1  RGM domain family member B isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC008522
    Conserved Domains (2) summary
    pfam06534
    Location:267441
    RGM_C; Repulsive guidance molecule (RGM) C-terminus
    pfam06535
    Location:95262
    RGM_N; Repulsive guidance molecule (RGM) N-terminus
  5. NM_001366511.1NP_001353440.1  RGM domain family member B isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC008522
    Conserved Domains (2) summary
    pfam06534
    Location:266440
    RGM_C; Repulsive guidance molecule (RGM) C-terminus
    pfam06535
    Location:94261
    RGM_N; Repulsive guidance molecule (RGM) N-terminus

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20190905

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000005.10 Reference GRCh38.p13 Primary Assembly

    Range
    98768632..98796494
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011543345.2XP_011541647.1  RGM domain family member B isoform X1

    See identical proteins and their annotated locations for XP_011541647.1

    UniProtKB/TrEMBL
    J3KNF6
    Conserved Domains (2) summary
    pfam06534
    Location:267441
    RGM_C; Repulsive guidance molecule (RGM) C-terminus
    pfam06535
    Location:95262
    RGM_N; Repulsive guidance molecule (RGM) N-terminus
  2. XM_011543347.3XP_011541649.2  RGM domain family member B isoform X4

  3. XM_011543346.2XP_011541648.1  RGM domain family member B isoform X3

    Conserved Domains (2) summary
    pfam06534
    Location:185364
    RGM_C; Repulsive guidance molecule (RGM) C-terminus
    pfam06535
    Location:13180
    RGM_N; Repulsive guidance molecule (RGM) N-terminus

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_173670.2: Suppressed sequence

    Description
    NM_173670.2: This RefSeq was permanently suppressed because there is insufficient support for the alternate terminal exon represented by this transcript.
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