Rgma MGI Mouse Gene Detail - MGI:2679262 - repulsive guidance molecule family member A

Symbol

Rgma
Name

repulsive guidance molecule family member A
Synonyms

MGC:38550, MGC:69915, RGM domain family, member A

Feature Type

protein coding gene
IDs

MGI:2679262
NCBI Gene: 244058
Alliance

gene page
Transcription Start Sites

12 TSS

Sequence Map

Chr7:73025268-73069647 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 7, 41.85 cM
Mapping Data

2 experiments

SNPs within 2kb

1249 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2679262	protein coding gene	Chr7:73025257-73069647 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0032368	protein coding gene	Chr7:74927994-74973760 (+)
A/J	MGP_AJ_G0032347	protein coding gene	Chr7:73245068-73289433 (+)
AKR/J	MGP_AKRJ_G0032283	protein coding gene	Chr7:74779368-74822968 (+)
BALB/cJ	MGP_BALBcJ_G0032359	protein coding gene	Chr7:73002353-73044940 (+)
C3H/HeJ	MGP_C3HHeJ_G0032072	protein coding gene	Chr7:75550057-75599572 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0032851	protein coding gene	Chr7:78029336-78075261 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0029859	protein coding gene	Chr7:75887168-75931138 (+)
CAST/EiJ	MGP_CASTEiJ_G0031400	protein coding gene	Chr7:66364485-66413169 (+)
CBA/J	MGP_CBAJ_G0032038	protein coding gene	Chr7:80558713-80614368 (+)
DBA/2J	MGP_DBA2J_G0032193	protein coding gene	Chr7:71913290-71955196 (+)
FVB/NJ	MGP_FVBNJ_G0032148	protein coding gene	Chr7:71967455-72009943 (+)
LP/J	MGP_LPJ_G0032274	protein coding gene	Chr7:76154780-76201413 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0032185	protein coding gene	Chr7:80716573-80759158 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0032869	protein coding gene	Chr7:74248353-74294556 (+)
PWK/PhJ	MGP_PWKPhJ_G0031120	protein coding gene	Chr7:65054515-65101077 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0030961	protein coding gene	Chr7:61314772-61364687 (+)
WSB/EiJ	MGP_WSBEiJ_G0031518	protein coding gene	Chr7:74591555-74637331 (+)

Human Ortholog

RGMA, repulsive guidance molecule BMP co-receptor a

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

RGMA, repulsive guidance molecule BMP co-receptor a
Synonyms

RGM
Links

HGNC:30308

NCBI Gene ID: 56963

neXtProt AC: NX_Q96B86

UniProt: Q96B86
Chr Location

15q26.1; chr15:93035271-93089211 (-) GRCh38

MGI Vertebrate Homology

Rgma stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: RGMA
Gene Tree

Rgma

Diseases

1 with human RGMA associations

				Human Disease	Mouse Models
				multiple sclerosis IDs multiple sclerosis DOID:2377 ICD10CM:G35 ICD9CM:340 MESH:D009103 NCI:C3243 OMIM:612594 OMIM:612595 OMIM:612596 UMLS_CUI:C0026769

Click on a disease name to see all genes associated with that disease.

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Phenotype Summary

7 phenotypes from 1 allele in 1 genetic background
17 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

9
Chemically induced (other)

1
Endonuclease-mediated

3
Gene trapped

2
Radiation induced

2
Targeted

1
Genomic Mutations

3 involving Rgma
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

27 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Inactivation of this locus results in impaired cephalic closure and subsequent exencephaly, both with incomplete penetrance. The retinal topography of the visual system is normal in homozygous mutant mice.

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All GO Annotations

39
GO References

10

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

1310
Tissues

218
cDNA Data

54
Literature Summary

18

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase rgma

ZFIN rgma

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All Sequences

45
RefSeq

4
UniProt

3
CCDS

CCDS21362.2

Ensembl

ENSMUSG00000070509 (Evidence)
NCBI Gene

244058

			Length	Strain/Species	Flank
genomic	244058	NCBI Gene Model \| MGI Sequence Detail	44380	C57BL/6J	± kb
transcript	NM_177740	RefSeq \| MGI Sequence Detail	3586	C57BL/6
polypeptide	Q6PCX7	UniProt \| EBI \| MGI Sequence Detail	454	Not Applicable

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UniProt

3 Sequences
Protein Ontology

PR:000013940 repulsive guidance molecule A

(term hierarchy)
InterPro Domains

IPR040287 Repulsive guidance molecule

IPR009496 Repulsive guidance molecule, C-terminal

IPR010536 Repulsive guidance molecule, N-terminal
GlyGen

Q6PCX7 3 sites, 2 N-linked glycans (2 sites)

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All nucleic 62

cDNA 55

Primer pair 3

Other 4

Microarray probesets 2

Summaries

All 67

Developmental Gene Expression 18

Gene Ontology 10

Phenotypes 17
Earliest

J:88307 Giometti CS, et al., The analysis of recessive lethal mutations in mice by using two-dimensional gel electrophoresis of liver proteins. Mutat Res. 1990 Sep;242(1):47-55
Latest

J:358244 Shimizu M, et al., RGMa collapses the neuronal actin barrier against disease-implicated protein and exacerbates ALS. Sci Adv. 2023 Nov 24;9(47):eadg3193

TSS for Rgma:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr67190	Chr7:73025228-73025240 (+)	-34 bp
Tssr67191	Chr7:73025242-73025297 (+)	2 bp
Tssr67192	Chr7:73025314-73025326 (+)	52 bp
Tssr67193	Chr7:73025333-73025345 (+)	71 bp
Tssr67194	Chr7:73025562-73025581 (+)	304 bp
Tssr67195	Chr7:73025588-73025604 (+)	328 bp
Tssr67196	Chr7:73040988-73041044 (+)	15,748 bp
Tssr67197	Chr7:73059131-73059142 (+)	33,869 bp
Tssr67198	Chr7:73059319-73059326 (+)	34,055 bp
Tssr67199	Chr7:73068034-73068037 (+)	42,768 bp
Tssr67200	Chr7:73068187-73068216 (+)	42,934 bp
Tssr67201	Chr7:73068373-73068386 (+)	43,112 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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