Fgd2 FYVE, RhoGEF and PH domain containing 2 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Fgd2provided by MGI
Official Full Name: FYVE, RhoGEF and PH domain containing 2provided by MGI
Primary source: MGI:MGI:1347084
See related: Ensembl:ENSMUSG00000024013 AllianceGenome:MGI:1347084
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Tcd2; tcs2; Tcd-2; tcs-2; ZFYVE4
Summary: Enables guanyl-nucleotide exchange factor activity and phosphatidylinositol phosphate binding activity. Acts upstream of or within positive regulation of JUN kinase activity. Located in early endosome; nucleus; and ruffle. Orthologous to human FGD2 (FYVE, RhoGEF and PH domain containing 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in spleen adult (RPKM 69.3), mammary gland adult (RPKM 18.8) and 12 other tissues See more
Orthologs: human all
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Genomic context

Location:: 17 15.26 cM; 17 A3.3

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	17	NC_000083.7 (29579878..29598509)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	17	NC_000083.6 (29360904..29379535)

Chromosome 17 - NC_000083.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The t allele of Fgd2 is overexpressed in testis compared with wild type, a loss-of-function allele of Fgd2 generated by gene targeting reduces the transmission ratio of the t haplotype t(h49), directly demonstrating the role of Fgd2 as Distorter.
Title: The t-complex-encoded guanine nucleotide exchange factor Fgd2 reveals that two opposing signaling pathways promote transmission ratio distortion in the mouse.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (3)
Targeted (2) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

613H23-T7 (e-PCR), detects polymorphism
- UniSTS:140981

Fgd2 (e-PCR), detects polymorphism
- UniSTS:143087

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables guanyl-nucleotide exchange factor activity	IBA Inferred from Biological aspect of Ancestor more info
enables guanyl-nucleotide exchange factor activity	IDA Inferred from Direct Assay more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables phosphatidylinositol phosphate binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in cytoskeleton organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in filopodium assembly	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within positive regulation of JUN kinase activity	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoskeleton	IEA Inferred from Electronic Annotation more info
located_in early endosome	IDA Inferred from Direct Assay more info	PubMed
located_in early endosome membrane	IEA Inferred from Electronic Annotation more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in ruffle	IDA Inferred from Direct Assay more info	PubMed
located_in ruffle membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: FYVE, RhoGEF and PH domain-containing protein 2

Names: Fgd1 family, member 2; Fgd2-like protein; faciogenital dysplasia homolog 2; faciogenital dysplasia protein 2; t-complex distorter 2

NCBI Reference Sequences (RefSeq)

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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)

NM_001159538.1 → NP_001153010.1 FYVE, RhoGEF and PH domain-containing protein 2 isoform 1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).

Source sequence(s)

AI451050, AK042260, BY005941

UniProtKB/Swiss-Prot

Q8BY35

Conserved Domains (4) summary

cd00160
Location:105 → 289

RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

cd13236
Location:539 → 641

PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus

cd13386
Location:321 → 428

PH1_FGD2; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia protein 2, N-terminal Pleckstrin homology (PH) domain

cd15741
Location:454 → 518

FYVE_FGD1_2_4; FYVE domain found in FYVE, RhoGEF and PH domain-containing protein facio-genital dysplasia FGD1, FGD2, FGD4
NM_013710.4 → NP_038738.2 FYVE, RhoGEF and PH domain-containing protein 2 isoform 2

See identical proteins and their annotated locations for NP_038738.2

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice junction at the 5' end of a coding exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is 1 aa shorter compared to isoform 1.

Source sequence(s)

AI451050, AK042260

Consensus CDS

CCDS37537.1

UniProtKB/Swiss-Prot

O88841, Q2L9D2, Q3U195, Q7TSE3, Q8BY35, Q8VDH4

Related

ENSMUSP00000024810.7, ENSMUST00000024810.8

Conserved Domains (5) summary

cd00160
Location:104 → 288

RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

cd13236
Location:538 → 640

PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus

cd13386
Location:320 → 427

PH1_FGD2; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia protein 2, N-terminal Pleckstrin homology (PH) domain

cd15741
Location:453 → 517

FYVE_FGD1_2_4; FYVE domain found in FYVE, RhoGEF and PH domain-containing protein facio-genital dysplasia FGD1, FGD2, FGD4

pfam00169
Location:320 → 417

PH; PH domain

RNA

NR_189095.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

AC162182
NR_189096.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

AC162182

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000083.7 Reference GRCm39 C57BL/6J

Range

29579878..29598509

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036160617.1 → XP_036016510.1 FYVE, RhoGEF and PH domain-containing protein 2 isoform X2

Conserved Domains (3) summary

cd00160
Location:105 → 289

RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

cd13386
Location:321 → 428

PH1_FGD2; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia protein 2, N-terminal Pleckstrin homology (PH) domain

cd15741
Location:454 → 535

FYVE_FGD1_2_4; FYVE domain found in FYVE, RhoGEF and PH domain-containing protein facio-genital dysplasia FGD1, FGD2, FGD4
XM_011246472.4 → XP_011244774.1 FYVE, RhoGEF and PH domain-containing protein 2 isoform X3

Conserved Domains (3) summary

cd00160
Location:105 → 289

RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

cd13386
Location:321 → 428

PH1_FGD2; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia protein 2, N-terminal Pleckstrin homology (PH) domain

cl28890
Location:454 → 490

FYVE_like_SF; FYVE domain like superfamily
XM_036160616.1 → XP_036016509.1 FYVE, RhoGEF and PH domain-containing protein 2 isoform X1

Conserved Domains (4) summary

cd00160
Location:105 → 289

RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

cd13236
Location:556 → 658

PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus

cd13386
Location:321 → 428

PH1_FGD2; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia protein 2, N-terminal Pleckstrin homology (PH) domain

cd15741
Location:454 → 535

FYVE_FGD1_2_4; FYVE domain found in FYVE, RhoGEF and PH domain-containing protein facio-genital dysplasia FGD1, FGD2, FGD4
XM_036160621.1 → XP_036016514.1 FYVE, RhoGEF and PH domain-containing protein 2 isoform X5

Conserved Domains (4) summary

cd13236
Location:314 → 416

PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus

cd13386
Location:79 → 186

PH1_FGD2; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia protein 2, N-terminal Pleckstrin homology (PH) domain

cd15741
Location:212 → 293

FYVE_FGD1_2_4; FYVE domain found in FYVE, RhoGEF and PH domain-containing protein facio-genital dysplasia FGD1, FGD2, FGD4

cl02571
Location:1 → 47

RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.
XM_036160618.1 → XP_036016511.1 FYVE, RhoGEF and PH domain-containing protein 2 isoform X4

Conserved Domains (4) summary

cd00160
Location:1 → 94

RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

cd13236
Location:361 → 463

PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus

cd13386
Location:126 → 233

PH1_FGD2; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia protein 2, N-terminal Pleckstrin homology (PH) domain

cd15741
Location:259 → 340

FYVE_FGD1_2_4; FYVE domain found in FYVE, RhoGEF and PH domain-containing protein facio-genital dysplasia FGD1, FGD2, FGD4
XM_036160619.1 → XP_036016512.1 FYVE, RhoGEF and PH domain-containing protein 2 isoform X4

Conserved Domains (4) summary

cd00160
Location:1 → 94

RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

cd13236
Location:361 → 463

PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus

cd13386
Location:126 → 233

PH1_FGD2; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia protein 2, N-terminal Pleckstrin homology (PH) domain

cd15741
Location:259 → 340

FYVE_FGD1_2_4; FYVE domain found in FYVE, RhoGEF and PH domain-containing protein facio-genital dysplasia FGD1, FGD2, FGD4
XM_036160620.1 → XP_036016513.1 FYVE, RhoGEF and PH domain-containing protein 2 isoform X4

Related

ENSMUST00000235007.2

Conserved Domains (4) summary

cd00160
Location:1 → 94

RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.

cd13236
Location:361 → 463

PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus

cd13386
Location:126 → 233

PH1_FGD2; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia protein 2, N-terminal Pleckstrin homology (PH) domain

cd15741
Location:259 → 340

FYVE_FGD1_2_4; FYVE domain found in FYVE, RhoGEF and PH domain-containing protein facio-genital dysplasia FGD1, FGD2, FGD4
XM_030249818.2 → XP_030105678.1 FYVE, RhoGEF and PH domain-containing protein 2 isoform X6

Conserved Domains (4) summary

cd13236
Location:297 → 399

PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus

cd13386
Location:79 → 186

PH1_FGD2; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia protein 2, N-terminal Pleckstrin homology (PH) domain

cd15741
Location:212 → 276

FYVE_FGD1_2_4; FYVE domain found in FYVE, RhoGEF and PH domain-containing protein facio-genital dysplasia FGD1, FGD2, FGD4

cl02571
Location:1 → 47

RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.
XM_030249817.2 → XP_030105677.1 FYVE, RhoGEF and PH domain-containing protein 2 isoform X6

Conserved Domains (4) summary

cd13236
Location:297 → 399

PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus

cd13386
Location:79 → 186

PH1_FGD2; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia protein 2, N-terminal Pleckstrin homology (PH) domain

cd15741
Location:212 → 276

FYVE_FGD1_2_4; FYVE domain found in FYVE, RhoGEF and PH domain-containing protein facio-genital dysplasia FGD1, FGD2, FGD4

cl02571
Location:1 → 47

RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.