Rorc MGI Mouse Gene Detail - MGI:104856 - RAR-related orphan receptor gamma

Symbol

Rorc
Name

RAR-related orphan receptor gamma
Synonyms

RORgamma, Thor, thymus orphan receptor

Feature Type

protein coding gene
IDs

MGI:104856
NCBI Gene: 19885
Alliance

gene page
Transcription Start Sites

15 TSS

Sequence Map

Chr3:94280101-94305583 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 3, 40.56 cM, cytoband F2
Mapping Data

2 experiments

SNPs within 2kb

229 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_104856	protein coding gene	Chr3:94280101-94305583 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0027547	protein coding gene	Chr3:94944849-94971754 (+)
A/J	MGP_AJ_G0027506	protein coding gene	Chr3:92054987-92081780 (+)
AKR/J	MGP_AKRJ_G0027474	protein coding gene	Chr3:94144808-94172361 (+)
BALB/cJ	MGP_BALBcJ_G0027517	protein coding gene	Chr3:91758692-91784334 (+)
C3H/HeJ	MGP_C3HHeJ_G0027253	protein coding gene	Chr3:94436694-94463209 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0027966	protein coding gene	Chr3:98536689-98562421 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0025308	protein coding gene	Chr3:88544731-88572028 (+)
CAST/EiJ	MGP_CASTEiJ_G0026701	protein coding gene	Chr3:93786277-93813753 (+)
CBA/J	MGP_CBAJ_G0027229	protein coding gene	Chr3:102027321-102053054 (+)
DBA/2J	MGP_DBA2J_G0027368	protein coding gene	Chr3:91315859-91341543 (+)
FVB/NJ	MGP_FVBNJ_G0027338	protein coding gene	Chr3:89419831-89446065 (+)
LP/J	MGP_LPJ_G0027476	protein coding gene	Chr3:96254444-96280194 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0027365	protein coding gene	Chr3:108261034-108286611 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0028020	protein coding gene	Chr3:93827495-93854509 (+)
PWK/PhJ	MGP_PWKPhJ_G0026429	protein coding gene	Chr3:91207039-91233423 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0026250	protein coding gene	Chr3:92168142-92193965 (+)
WSB/EiJ	MGP_WSBEiJ_G0026784	protein coding gene	Chr3:94176828-94202468 (+)

Human Ortholog

RORC, RAR related orphan receptor C

Vertebrate Orthologs

5

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

RORC, RAR related orphan receptor C
Synonyms

IMD42, NR1F3, RORG, RZRG, RZR-GAMMA, TOR
Links

HGNC:10260

NCBI Gene ID: 6097

neXtProt AC: NX_P51449

UniProt: P51449
Chr Location

1q21.3; chr1:151806071-151832450 (-) GRCh38.p7

Alliance of Genome Resources

Rorc stringent orthology
1 human;1 mouse;1 rat;3 zebrafish
HCOP

vertebrate homology predictions: RORC
Gene Tree

Rorc

Diseases

1 with human RORC associations

				Human Disease	Mouse Models
				immunodeficiency 42 IDs immunodeficiency 42 DOID:0111940 OMIM:616622 ORDO:477857

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

Mutations/Alleles

1 with disease annotations

References

2 with disease annotations

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Phenotype Summary

47 phenotypes from 7 alleles in 6 genetic backgrounds
27 phenotypes from multigenic genotypes
288 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	immune system	integument	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	neoplasm	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	vision/eye

Click cells to view annotations.

All Mutations and Alleles

23
Chemically induced (ENU)

3
Chemically induced (other)

1
Endonuclease-mediated

7
Radiation induced

1
Targeted

10
Transgenic

1
Genomic Mutations

2 involving Rorc
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

31 strains or lines available
Comparison Matrix

Gene Expression + Phenotype
Recombinase Activity

Comparison Matrix Gene Expression + Recombinase Activity

Homozygotes for targeted null mutations exhibit lack of peripheral and mesenteric lymph nodes and Peyer's patches, reduced numbers of thymocytes, and increased apoptosis with loss of thymic expression of anti-apoptosic factor Bcl-xL.

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All GO Annotations

57
GO References

26

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	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	non-membrane-bounded 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

826
Tissues

84
cDNA Data

36
Literature Summary

20

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase rorc

ZFIN rorca, rorcb

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Rorc interacts with 202 markers (Mir7-1, Mir7-2, Mir7b, ...) View All

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All Sequences

55
RefSeq

11
UniProt

5
CCDS

CCDS17591.1, CCDS79971.1

Ensembl

ENSMUSG00000028150 (Evidence)
NCBI Gene

19885

			Length	Strain/Species	Flank
genomic	19885	NCBI Gene Model \| MGI Sequence Detail	25483	C57BL/6J	± kb
transcript	NR_121656	RefSeq \| MGI Sequence Detail	3250	C57BL/6
polypeptide	P51450	UniProt \| EBI \| MGI Sequence Detail	516	Not Applicable

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UniProt

5 Sequences
Protein Ontology

PR:000001902 nuclear receptor ROR-gamma

(term hierarchy)
InterPro Domains

IPR001723 Nuclear hormone receptor

IPR000536 Nuclear hormone receptor, ligand-binding domain

IPR035500 Nuclear hormone receptor-like domain superfamily

IPR003079 Nuclear receptor ROR

IPR044101 Retinoid-related orphan receptors, DNA-binding domain

IPR013088 Zinc finger, NHR/GATA-type

IPR001628 Zinc finger, nuclear hormone receptor-type

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All nucleic 46

Genomic 2

cDNA 39

Primer pair 4

Other 1

Microarray probesets 4

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MGD-MRK-28153

Summaries

All 387

Developmental Gene Expression 20

Diseases 2

Gene Ontology 26

Phenotypes 288
Earliest

J:30013 Ortiz MA, et al., TOR: a new orphan receptor expressed in the thymus that can modulate retinoid and thyroid hormone signals. Mol Endocrinol. 1995 Dec;9(12):1679-91
Latest

J:335145 Chang D, et al., A cis-element at the Rorc locus regulates the development of type 3 innate lymphoid cells. Front Immunol. 2023;14:1105145

TSS for Rorc:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr30431	Chr3:94280118-94280179 (+)	48 bp
Tssr30432	Chr3:94280193-94280194 (+)	93 bp
Tssr30433	Chr3:94284716-94284730 (+)	4,622 bp
Tssr30434	Chr3:94284740-94284758 (+)	4,648 bp
Tssr30435	Chr3:94284761-94284788 (+)	4,674 bp
Tssr30436	Chr3:94284793-94284804 (+)	4,698 bp
Tssr30437	Chr3:94284812-94284834 (+)	4,722 bp
Tssr30438	Chr3:94284846-94284857 (+)	4,751 bp
Tssr30439	Chr3:94292986-94292989 (+)	12,887 bp
Tssr30440	Chr3:94294224-94294235 (+)	14,129 bp
Tssr30441	Chr3:94294262-94294281 (+)	14,171 bp
Tssr30442	Chr3:94294338-94294358 (+)	14,247 bp
Tssr30443	Chr3:94295560-94295597 (+)	15,478 bp
Tssr30444	Chr3:94295601-94295608 (+)	15,504 bp
Tssr30445	Chr3:94300048-94300055 (+)	19,951 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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