Fgd3 MGI Mouse Gene Detail - MGI:1353657 - FYVE, RhoGEF and PH domain containing 3

Symbol

Fgd3
Name

FYVE, RhoGEF and PH domain containing 3
Synonyms

5830461L01Rik, ZFYVE5

Feature Type

protein coding gene
IDs

MGI:1353657
NCBI Gene: 30938
Alliance

gene page
Transcription Start Sites

10 TSS

Sequence Map

Chr13:49415030-49473783 bp, - strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 13, 25.18 cM
Mapping Data

4 experiments

SNPs within 2kb

1483 from dbSNP Build 142
Strain Annotations

18
PCR

1

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1353657	protein coding gene	Chr13:49415030-49473787 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0020533	protein coding gene	Chr13:48228813-48288950 (-)
A/J	MGP_AJ_G0020487	protein coding gene	Chr13:46514177-46572873 (-)
AKR/J	MGP_AKRJ_G0020464	protein coding gene	Chr13:47827561-47886256 (-)
BALB/cJ	MGP_BALBcJ_G0020483	protein coding gene	Chr13:46730138-46788662 (-)
C3H/HeJ	MGP_C3HHeJ_G0020282	protein coding gene	Chr13:47650576-47710817 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0020916	protein coding gene	Chr13:49682877-49743223 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0018501	protein coding gene	Chr13:44493085-44552024 (-)
CAST/EiJ	MGP_CASTEiJ_G0019797	protein coding gene	Chr13:47656730-47717913 (-)
CBA/J	MGP_CBAJ_G0020243	protein coding gene	Chr13:51737227-51795940 (-)
DBA/2J	MGP_DBA2J_G0020365	protein coding gene	Chr13:46039504-46098520 (-)
FVB/NJ	MGP_FVBNJ_G0020344	protein coding gene	Chr13:45557597-45621178 (-)
LP/J	MGP_LPJ_G0020440	protein coding gene	Chr13:48450219-48510516 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0020373	protein coding gene	Chr13:51444284-51506904 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0020959	protein coding gene	Chr13:47529048-47588798 (-)
PWK/PhJ	MGP_PWKPhJ_G0019553	protein coding gene	Chr13:46222538-46281764 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0019381	protein coding gene	Chr13:46231045-46295206 (-)
WSB/EiJ	MGP_WSBEiJ_G0019859	protein coding gene	Chr13:47841502-47904754 (-)

Human Ortholog

FGD3, FYVE, RhoGEF and PH domain containing 3

Vertebrate Orthologs

2

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

FGD3, FYVE, RhoGEF and PH domain containing 3
Synonyms

ZFYVE5
Links

HGNC:16027

NCBI Gene ID: 89846

neXtProt AC: NX_Q5JSP0

UniProt: Q5JSP0
Chr Location

9q22.31; chr9:92947523-93036236 (+) GRCh38

MGI Vertebrate Homology

Fgd3 stringent orthology
1 human;1 mouse;1 rat
HCOP

vertebrate homology predictions: FGD3
Gene Tree

Fgd3

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Phenotype Summary

7 phenotypes from 1 allele in 1 genetic background
7 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

3
Chemically induced (other)

1
Endonuclease-mediated

1
Targeted

1
Genomic Mutations

1 involving Fgd3
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

32 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

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All GO Annotations

9
GO References

4

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

760
Tissues

19
cDNA Data

9
Literature Summary

4

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

GEISHA FGD3

Xenbase fgd3

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All Sequences

48
RefSeq

12
UniProt

3
CCDS

CCDS26499.1

Ensembl

ENSMUSG00000037946 (Evidence)
NCBI Gene

30938

			Length	Strain/Species	Flank
genomic	30938	NCBI Gene Model \| MGI Sequence Detail	58754	C57BL/6J	± kb
transcript	NM_015759	RefSeq \| MGI Sequence Detail	3110	ZRU/MplStud
polypeptide	O88842	UniProt \| EBI \| MGI Sequence Detail	733	Not Applicable

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UniProt

3 Sequences
Protein Ontology

PR:000007475 FYVE, RhoGEF and PH domain-containing protein 3

(term hierarchy)
InterPro Domains

IPR000219 Dbl homology (DH) domain

IPR035899 Dbl homology (DH) domain superfamily

IPR035941 FGD1-4, C-terminal PH domain

IPR051092 FYVE, RhoGEF and PH domain-containing

IPR000306 FYVE zinc finger

IPR011993 PH-like domain superfamily

IPR001849 Pleckstrin homology domain

IPR011011 Zinc finger, FYVE/PHD-type

IPR017455 Zinc finger, FYVE-related

IPR013083 Zinc finger, RING/FYVE/PHD-type

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All nucleic 11

cDNA 10

Primer pair 1

Microarray probesets 5

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MGI:1923341

Summaries

All 37

Developmental Gene Expression 4

Gene Ontology 4

Phenotypes 7
Earliest

J:182573 Roderick TH, Producing and detecting paracentric chromosomal inversions in mice. Mutat Res. 1971 Jan;11(1):59-69
Latest

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

TSS for Fgd3:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr122487	Chr13:49473695-49473765 (-)	53 bp
Tssr122486	Chr13:49473675-49473694 (-)	98 bp
Tssr122485	Chr13:49462693-49462733 (-)	11,070 bp
Tssr122484	Chr13:49462674-49462690 (-)	11,101 bp
Tssr122483	Chr13:49462462-49462477 (-)	11,313 bp
Tssr122482	Chr13:49452278-49452289 (-)	21,499 bp
Tssr122481	Chr13:49452154-49452173 (-)	21,619 bp
Tssr122480	Chr13:49452125-49452133 (-)	21,654 bp
Tssr122479	Chr13:49441389-49441433 (-)	32,372 bp
Tssr122478	Chr13:49441205-49441222 (-)	32,569 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)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 12/10/2024 MGI 6.24