Zfyve27 zinc finger FYVE-type containing 27 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Zfyve27provided by RGD
Official Full Name: zinc finger FYVE-type containing 27provided by RGD
Primary source: RGD:735177
See related: Ensembl:ENSRNOG00000014903 AllianceGenome:RGD:735177
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable identical protein binding activity and protein self-association. Involved in neuron projection development; neurotrophin TRK receptor signaling pathway; and protein localization to plasma membrane. Located in growth cone membrane and recycling endosome membrane. Human ortholog(s) of this gene implicated in hereditary spastic paraplegia 33. Orthologous to human ZFYVE27 (zinc finger FYVE-type containing 27). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 84.6), Adrenal (RPKM 49.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q54

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (250929110..250952481)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (240979831..241003193)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (261415172..261438539)

Chromosome 1 - NC_086019.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

A kinesin 1-protrudin complex mediates AMPA receptor synaptic removal during long-term depression.
Title: A kinesin 1-protrudin complex mediates AMPA receptor synaptic removal during long-term depression.
VAP-A is an important regulator both of the subcellular localization of protrudin and of its ability to stimulate neurite outgrowth.
Title: Promotion of neurite extension by protrudin requires its interaction with vesicle-associated membrane protein-associated protein.
protrudin regulates Rab11-dependent membrane recycling to promote the directional membrane trafficking required for neurite formation [protrudin]
Title: Protrudin induces neurite formation by directional membrane trafficking.

Submit: New GeneRIF Correction

General gene information

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Markers

RH129707 (e-PCR)
- UniSTS:213002

RH129858 (e-PCR)
- UniSTS:213146

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in endoplasmic reticulum tubular network formation	IBA Inferred from Biological aspect of Ancestor more info
involved_in endoplasmic reticulum tubular network formation	IEA Inferred from Electronic Annotation more info
involved_in endoplasmic reticulum tubular network formation	ISO Inferred from Sequence Orthology more info
involved_in endoplasmic reticulum tubular network formation	ISS Inferred from Sequence or Structural Similarity more info
involved_in neuron projection development	IBA Inferred from Biological aspect of Ancestor more info
involved_in neuron projection development	IEA Inferred from Electronic Annotation more info
involved_in neuron projection development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron projection development	ISO Inferred from Sequence Orthology more info
involved_in neurotrophin TRK receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in neurotrophin TRK receptor signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of axon extension	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of axon extension	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of axon extension	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of axon extension	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein localization to plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein localization to plasma membrane	IDA Inferred from Direct Assay more info	PubMed
involved_in protein localization to plasma membrane	IEA Inferred from Electronic Annotation more info
involved_in vesicle-mediated transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in vesicle-mediated transport	IEA Inferred from Electronic Annotation more info
involved_in vesicle-mediated transport	ISO Inferred from Sequence Orthology more info
involved_in vesicle-mediated transport	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in axon	ISO Inferred from Sequence Orthology more info
located_in axon	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in dendrite	IEA Inferred from Electronic Annotation more info
located_in dendrite	ISO Inferred from Sequence Orthology more info
located_in dendrite	ISS Inferred from Sequence or Structural Similarity more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	ISS Inferred from Sequence or Structural Similarity more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum membrane	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum membrane	ISS Inferred from Sequence or Structural Similarity more info
is_active_in endoplasmic reticulum tubular network	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum tubular network	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum tubular network	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum tubular network	ISS Inferred from Sequence or Structural Similarity more info
is_active_in growth cone membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in growth cone membrane	IDA Inferred from Direct Assay more info	PubMed
located_in growth cone membrane	IEA Inferred from Electronic Annotation more info
located_in growth cone membrane	ISO Inferred from Sequence Orthology more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in recycling endosome membrane	IDA Inferred from Direct Assay more info	PubMed
located_in recycling endosome membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: protrudin

Names: zinc finger FYVE domain-containing protein 27; zinc finger, FYVE domain containing 27

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_199104.2 → NP_954535.2 protrudin

See identical proteins and their annotated locations for NP_954535.2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000001

UniProtKB/Swiss-Prot

Q6P7B7

UniProtKB/TrEMBL

A0A8I6AJX0

Related

ENSRNOP00000074613.1, ENSRNOT00000083287.2

Conserved Domains (1) summary

cd15723
Location:342 → 402

FYVE_protrudin; FYVE-related domain found in protrudin and similar proteins

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086019.1 Reference GRCr8

Range

250929110..250952481

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006231392.5 → XP_006231454.1 protrudin isoform X3

UniProtKB/TrEMBL

A0A140TAG8, A0A8I6AJX0

Related

ENSRNOP00000051399.4

Conserved Domains (1) summary

cd15723
Location:349 → 409

FYVE_protrudin; FYVE-related domain found in protrudin and similar proteins
XM_063264672.1 → XP_063120742.1 protrudin isoform X1

UniProtKB/TrEMBL

A0A8I6AJX0
XM_063264673.1 → XP_063120743.1 protrudin isoform X2

UniProtKB/TrEMBL

A0A8I6AJX0
XM_039080096.2 → XP_038936024.1 protrudin isoform X5

UniProtKB/TrEMBL

A6JHB0
XM_063264677.1 → XP_063120747.1 protrudin isoform X4
XM_063264680.1 → XP_063120750.1 protrudin isoform X6