Fyco1 FYVE and coiled-coil domain containing 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Fyco1provided by MGI
Official Full Name: FYVE and coiled-coil domain containing 1provided by MGI
Primary source: MGI:MGI:107277
See related: Ensembl:ENSMUSG00000025241 AllianceGenome:MGI:107277
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: Mem2; RUFY3; ZFYVE7; 2810409M01Rik
Summary: Predicted to enable metal ion binding activity. Predicted to be involved in plus-end-directed vesicle transport along microtubule and positive regulation of autophagosome maturation. Predicted to be located in Golgi apparatus. Predicted to be active in autophagosome; late endosome; and lysosome. Is expressed in central nervous system; early conceptus; and retina. Human ortholog(s) of this gene implicated in cataract 18. Orthologous to human FYCO1 (FYVE and coiled-coil domain autophagy adaptor 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in heart adult (RPKM 19.9), testis adult (RPKM 8.7) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 9 F4; 9 74.52 cM

Exon count:: 21

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	9	NC_000075.7 (123618565..123681110, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	9	NC_000075.6 (123789500..123851899, complement)

Chromosome 9 - NC_000075.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

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Expression

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See details

Project title: 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 role of FYCO1-dependent autophagy in lens fiber cell differentiation.
Title: The role of FYCO1-dependent autophagy in lens fiber cell differentiation.
Loss of FYCO1 leads to cataract formation.
Title: Loss of FYCO1 leads to cataract formation.
Ribonucleoprotein granule homeostasis is regulated by FYCO1-mediated autophagy.
Title: FYCO1 and autophagy control the integrity of the haploid male germ cell-specific RNP granules.
The crystal structure of mouse LC3B in complex with the FYCO1 LC3-interacting region (LIR) reveals the importance of the flanking region of the LIR motif.
Title: The crystal structure of mouse LC3B in complex with the FYCO1 LIR reveals the importance of the flanking region of the LIR motif.
FYVE and coiled-coil domain containing 1 (FYCO1), a protein previously implicated in autophagosome trafficking, is recruited directly by LC3 to Dectin-1 phagosomes.
Title: Cutting edge: FYCO1 recruitment to dectin-1 phagosomes is accelerated by light chain 3 protein and regulates phagosome maturation and reactive oxygen production.

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Variation

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Alleles

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

Endonuclease-mediated (1)
Targeted (4) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

NoName (e-PCR)
- UniSTS:236293

AU048745 (e-PCR)
- UniSTS:145195

BB217514 (e-PCR)
- UniSTS:185810

Mem2 (e-PCR), detects polymorphism
- UniSTS:143858

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in plus-end-directed vesicle transport along microtubule	IBA Inferred from Biological aspect of Ancestor more info
involved_in plus-end-directed vesicle transport along microtubule	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of autophagosome maturation	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of autophagosome maturation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
is_active_in autophagosome	IBA Inferred from Biological aspect of Ancestor more info
located_in autophagosome	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic vesicle	IEA Inferred from Electronic Annotation more info
located_in endosome	IEA Inferred from Electronic Annotation more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
is_active_in late endosome	IBA Inferred from Biological aspect of Ancestor more info
located_in late endosome	ISO Inferred from Sequence Orthology more info
is_active_in lysosome	IBA Inferred from Biological aspect of Ancestor more info
located_in lysosome	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: FYVE and coiled-coil domain-containing protein 1

Names: maternal embryonic message 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_001110253.2 → NP_001103723.2 FYVE and coiled-coil domain-containing protein 1

See identical proteins and their annotated locations for NP_001103723.2

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Both variants 1 and 2 encode the same protein.

Source sequence(s)

AC165425, AC242669, AC242682

Consensus CDS

CCDS40819.1

UniProtKB/Swiss-Prot

Q3V385, Q7TMT0, Q8BJN2, Q8VDC1

Related

ENSMUSP00000133222.3, ENSMUST00000167595.9

Conserved Domains (4) summary

TIGR02168
Location:294 → 1110

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

cd15726
Location:1130 → 1186

FYVE_FYCO1; FYVE domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar proteins

pfam13897
Location:1378 → 1423

GOLD_2; Golgi-dynamics membrane-trafficking

cl02689
Location:59 → 164

RUN; RUN domain
NM_148925.3 → NP_683727.3 FYVE and coiled-coil domain-containing protein 1

See identical proteins and their annotated locations for NP_683727.3

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript. Both variants 1 and 2 encode the same protein.

Source sequence(s)

AC165425, AC242669

Consensus CDS

CCDS40819.1

UniProtKB/Swiss-Prot

Q3V385, Q7TMT0, Q8BJN2, Q8VDC1

Related

ENSMUSP00000081764.6, ENSMUST00000084715.14

Conserved Domains (4) summary

TIGR02168
Location:294 → 1110

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

cd15726
Location:1130 → 1186

FYVE_FYCO1; FYVE domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar proteins

pfam13897
Location:1378 → 1423

GOLD_2; Golgi-dynamics membrane-trafficking

cl02689
Location:59 → 164

RUN; RUN domain

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_000075.7 Reference GRCm39 C57BL/6J

Range

123618565..123681110 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036154635.1 → XP_036010528.1 FYVE and coiled-coil domain-containing protein 1 isoform X1

UniProtKB/Swiss-Prot

Q3V385, Q7TMT0, Q8BJN2, Q8VDC1

Conserved Domains (4) summary

TIGR02168
Location:294 → 1110

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

cd15726
Location:1130 → 1186

FYVE_FYCO1; FYVE domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar proteins

pfam13897
Location:1378 → 1423

GOLD_2; Golgi-dynamics membrane-trafficking

cl02689
Location:59 → 164

RUN; RUN domain
XM_030244077.2 → XP_030099937.1 FYVE and coiled-coil domain-containing protein 1 isoform X1

UniProtKB/Swiss-Prot

Q3V385, Q7TMT0, Q8BJN2, Q8VDC1

Conserved Domains (4) summary

TIGR02168
Location:294 → 1110

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

cd15726
Location:1130 → 1186

FYVE_FYCO1; FYVE domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar proteins

pfam13897
Location:1378 → 1423

GOLD_2; Golgi-dynamics membrane-trafficking

cl02689
Location:59 → 164

RUN; RUN domain
XM_017313159.3 → XP_017168648.1 FYVE and coiled-coil domain-containing protein 1 isoform X1

UniProtKB/Swiss-Prot

Q3V385, Q7TMT0, Q8BJN2, Q8VDC1

Conserved Domains (4) summary

TIGR02168
Location:294 → 1110

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

cd15726
Location:1130 → 1186

FYVE_FYCO1; FYVE domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar proteins

pfam13897
Location:1378 → 1423

GOLD_2; Golgi-dynamics membrane-trafficking

cl02689
Location:59 → 164

RUN; RUN domain