Rab5c MGI Mouse Gene Detail - MGI:105306 - RAB5C, member RAS oncogene family

Symbol

Rab5c
Name

RAB5C, member RAS oncogene family

Feature Type

protein coding gene
IDs

MGI:105306
NCBI Gene: 19345
Alliance

gene page
Transcription Start Sites

12 TSS

Sequence Map

Chr11:100605835-100629041 bp, - strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 11, 63.54 cM
Mapping Data

3 experiments

SNPs within 2kb

531 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_105306	protein coding gene	Chr11:100605829-100629041 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0019167	protein coding gene	Chr11:103480507-103510817 (-)
A/J	MGP_AJ_G0019135	protein coding gene	Chr11:99165669-99189269 (-)
AKR/J	MGP_AKRJ_G0019104	protein coding gene	Chr11:102236676-102268148 (-)
BALB/cJ	MGP_BALBcJ_G0019109	protein coding gene	Chr11:99652891-99676535 (-)
C3H/HeJ	MGP_C3HHeJ_G0018918	protein coding gene	Chr11:102410061-102433320 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0019558	protein coding gene	Chr11:106694963-106718041 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0017184	protein coding gene	Chr11:96582499-96605656 (-)
CAST/EiJ	MGP_CASTEiJ_G0018472	protein coding gene	Chr11:103388575-103414696 (-)
CBA/J	MGP_CBAJ_G0018887	protein coding gene	Chr11:111148158-111176966 (-)
DBA/2J	MGP_DBA2J_G0018999	protein coding gene	Chr11:98702444-98725691 (-)
FVB/NJ	MGP_FVBNJ_G0018989	protein coding gene	Chr11:98240953-98264157 (-)
LP/J	MGP_LPJ_G0019068	protein coding gene	Chr11:104042159-104069398 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0019020	protein coding gene	Chr11:110734815-110758821 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0019596	protein coding gene	Chr11:102562342-102585584 (-)
PWK/PhJ	MGP_PWKPhJ_G0018235	protein coding gene	Chr11:99740270-99764673 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0018027	protein coding gene	Chr11:102306354-102329323 (-)
WSB/EiJ	MGP_WSBEiJ_G0018521	protein coding gene	Chr11:102550576-102575385 (-)

Human Ortholog

RAB5C, RAB5C, member RAS oncogene family

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

RAB5C, RAB5C, member RAS oncogene family
Synonyms

L1880, RAB5CL, RAB5L, RABL
Links

HGNC:9785

NCBI Gene ID: 5878

neXtProt AC: NX_P51148

UniProt: P51148
Chr Location

17q21.2; chr17:42124978-42155044 (-) GRCh38

MGI Vertebrate Homology

Rab5c stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: RAB5C
Gene Tree

Rab5c

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Phenotype Summary

5 phenotypes from 1 allele in 1 genetic background
19 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

64
Endonuclease-mediated

2
Gene trapped

56
Targeted

6
Genomic Mutations

3 involving Rab5c
Find Mice (IMSR)

40 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

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All GO Annotations

26
GO References

9

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

722
Tissues

15
cDNA Data

155
Literature Summary

2

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase rab5c

ZFIN rab5c

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All Sequences

60
RefSeq

10
UniProt

6
CCDS

CCDS36333.1, CCDS79048.1

Ensembl

ENSMUSG00000019173 (Evidence)
NCBI Gene

19345

			Length	Strain/Species	Flank
genomic	ENSMUSG00000019173	Ensembl Gene Model \| MGI Sequence Detail	23207	C57BL/6J	± kb
transcript	ENSMUST00000019317	Ensembl \| MGI Sequence Detail	1967	Not Applicable
polypeptide	ENSMUSP00000019317	Ensembl \| MGI Sequence Detail	234	Not Applicable

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UniProt

6 Sequences
Protein Ontology

PR:000013635 Ras-related protein Rab-5C

(term hierarchy)
PDB

1HUQ, 1Z07, 1Z0D
EC

3.6.5.2
InterPro Domains

IPR027417 P-loop containing nucleoside triphosphate hydrolase

IPR001806 Small GTPase

IPR005225 Small GTP-binding protein domain
GlyGen

P35278 1 site, 1 O-linked glycan (1 site)

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All nucleic 158

Genomic 2

cDNA 155

Other 1

Microarray probesets 3

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MGD-MRK-32347, MGI:2144132

Summaries

All 57

Developmental Gene Expression 2

Gene Ontology 9

Phenotypes 19
Earliest

J:24144 Chavrier P, et al., The complexity of the Rab and Rho GTP-binding protein subfamilies revealed by a PCR cloning approach. Gene. 1992 Mar 15;112(2):261-4
Latest

J:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136

TSS for Rab5c:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr110864	Chr11:100628979-100629038 (-)	32 bp
Tssr110863	Chr11:100628940-100628966 (-)	88 bp
Tssr110862	Chr11:100615106-100615117 (-)	13,929 bp
Tssr110861	Chr11:100615050-100615082 (-)	13,975 bp
Tssr110860	Chr11:100612140-100612146 (-)	16,898 bp
Tssr110859	Chr11:100610970-100610981 (-)	18,065 bp
Tssr110858	Chr11:100610935-100610953 (-)	18,097 bp
Tssr110857	Chr11:100609394-100609413 (-)	19,637 bp
Tssr110856	Chr11:100606838-100606879 (-)	22,182 bp
Tssr110855	Chr11:100606710-100606720 (-)	22,326 bp
Tssr110854	Chr11:100606600-100606627 (-)	22,427 bp
Tssr110853	Chr11:100606180-100606202 (-)	22,850 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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