Snph syntaphilin [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Snphprovided by RGD
Official Full Name: syntaphilinprovided by RGD
Primary source: RGD:1305867
See related: Ensembl:ENSRNOG00000009588 AllianceGenome:RGD:1305867
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 syntaxin-1 binding activity. Involved in brain development and neuron differentiation. Located in several cellular components, including mitochondrial membrane; neuronal cell body; and presynaptic membrane. Orthologous to human SNPH (syntaphilin). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 97.4), Adrenal (RPKM 10.1) and 2 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q41

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (160558929..160603636, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (140098540..140139342, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (147102394..147143576, complement)

Chromosome 3 - NC_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

Identification of a novel interaction of FUS and syntaphilin may explain synaptic and mitochondrial abnormalities caused by ALS mutations.
Title: Identification of a novel interaction of FUS and syntaphilin may explain synaptic and mitochondrial abnormalities caused by ALS mutations.
Stressed mitochondria are removed from axons triggered by the bulk release of mitochondrial anchoring protein syntaphilin via a new class of mitochondria-derived cargos independent of Parkin, Drp1, and autophagy.
Title: Releasing Syntaphilin Removes Stressed Mitochondria from Axons Independent of Mitophagy under Pathophysiological Conditions.
Our studies suggest an unexpected role for LC8 and provide new mechanistic insights into how SNPH and LC8 together immobilize mitochondria through a dynamic interaction between the docking receptor and axonal cytoskeleton.
Title: Dynein light chain LC8 regulates syntaphilin-mediated mitochondrial docking in axons.
syntaphilin was identified as a molecular clamp that controls free syntaxin-1 and dynamin-1 availability and thereby regulates synaptic vesicle exocytosis and endocytosis. PKA phosphorylation of syntaphilin decreases its binding to syntaxin-1A in vitro.
Title: Phosphorylation of syntaphilin by cAMP-dependent protein kinase modulates its interaction with syntaxin-1 and annuls its inhibitory effect on vesicle exocytosis.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in neuron differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in neuron differentiation	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasmic microtubule	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasmic microtubule	IEA Inferred from Electronic Annotation more info
located_in cytoplasmic microtubule	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic microtubule	ISS Inferred from Sequence or Structural Similarity more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in mitochondrial membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in mitochondrion	IBA Inferred from Biological aspect of Ancestor more info
located_in neuron projection	IEA Inferred from Electronic Annotation more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
is_active_in presynaptic membrane	IDA Inferred from Direct Assay more info	PubMed
located_in presynaptic membrane	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: syntaphilin

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_001106525.3 → NP_001099995.1 syntaphilin

See identical proteins and their annotated locations for NP_001099995.1

Status: VALIDATED

Source sequence(s)

BC168917, JAXUCZ010000003

UniProtKB/Swiss-Prot

B5DF41

Conserved Domains (1) summary

pfam15290
Location:25 → 241

Syntaphilin; Golgi-localized syntaxin-1-binding clamp

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_086021.1 Reference GRCr8

Range

160558929..160603636 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063283362.1 → XP_063139432.1 syntaphilin isoform X6

UniProtKB/TrEMBL

A6KHJ3
XM_006235226.5 → XP_006235288.1 syntaphilin isoform X4

See identical proteins and their annotated locations for XP_006235288.1

UniProtKB/TrEMBL

A6KHJ6

Conserved Domains (1) summary

pfam15290
Location:58 → 274

Syntaphilin; Golgi-localized syntaxin-1-binding clamp
XM_017591595.3 → XP_017447084.1 syntaphilin isoform X1

UniProtKB/TrEMBL

A0A8I5ZUF6

Conserved Domains (1) summary

pfam15290
Location:102 → 318

Syntaphilin; Golgi-localized syntaxin-1-binding clamp
XM_017591590.3 → XP_017447079.1 syntaphilin isoform X1

UniProtKB/TrEMBL

A0A8I5ZUF6

Related

ENSRNOP00000082917.1

Conserved Domains (1) summary

pfam15290
Location:102 → 318

Syntaphilin; Golgi-localized syntaxin-1-binding clamp
XM_063283360.1 → XP_063139430.1 syntaphilin isoform X3
XM_063283361.1 → XP_063139431.1 syntaphilin isoform X5

UniProtKB/TrEMBL

A0A8I6AS45
XM_063283359.1 → XP_063139429.1 syntaphilin isoform X2

UniProtKB/TrEMBL

A0A8L2Q5Z5