Sytl4 synaptotagmin-like 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sytl4provided by RGD
Official Full Name: synaptotagmin-like 4provided by RGD
Primary source: RGD:620204
See related: Ensembl:ENSRNOG00000003526 AllianceGenome:RGD:620204
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 neurexin family protein binding activity and phospholipid binding activity. Predicted to be involved in several processes, including lysosome localization; plasma membrane repair; and positive regulation of secretion by cell. Predicted to act upstream of or within negative regulation of insulin secretion. Located in apical plasma membrane and secretory granule membrane. Orthologous to human SYTL4 (synaptotagmin like 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Adrenal (RPKM 180.8), Spleen (RPKM 44.6) and 8 other tissues See more
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: Xq32

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	X	NC_086039.1 (101428785..101479207, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	X	NC_051356.1 (97135496..97185867, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	X	NC_005120.4 (104763961..104814152, complement)

Chromosome X - NC_086039.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Results support a role of PGC-1 in the regulation of insulin secretion via upregulation of UCP2 and granuphilin gene expression.
Title: Transcriptional co-activator peroxisome proliferator-activated receptor (PPAR)gamma co-activator-1beta is involved in the regulation of glucose-stimulated insulin secretion in INS-1E cells.
Three Rab3/27 effectors, Granuphilin, Noc2, and Rabphilin, in PC12 cells using fluorescence recovery after photobleaching of EGFP-tagged proteins.
Title: The Rab27 effector Rabphilin, unlike Granuphilin and Noc2, rapidly exchanges between secretory granules and cytosol in PC12 cells.
binds to Rab3 and Munc-19 in pancreatic beta-cells and controls exocytosis
Title: Pancreatic beta-cell protein granuphilin binds Rab3 and Munc-18 and controls exocytosis.
Slp4-a modulates amylase release from parotid acinar cells through interaction with syntaxin-2/3 on the apical plasma membrane.
Title: Slp4-a/granuphilin-a interacts with syntaxin-2/3 in a Munc18-2-dependent manner.
Sytl4 controls regulated dense-core vesicle exocytosis via binding to Rab27A
Title: Slp4-a/granuphilin-a regulates dense-core vesicle exocytosis in PC12 cells.

Submit: New GeneRIF Correction

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Markers

Sytl4 (e-PCR), detects polymorphism
- UniSTS:525516

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables neurexin family protein binding	IBA Inferred from Biological aspect of Ancestor more info
enables neurexin family protein binding	IEA Inferred from Electronic Annotation more info
enables neurexin family protein binding	ISO Inferred from Sequence Orthology more info
enables neurexin family protein binding	ISS Inferred from Sequence or Structural Similarity more info
enables phospholipid binding	IEA Inferred from Electronic Annotation more info
enables phospholipid binding	ISO Inferred from Sequence Orthology more info
enables phospholipid binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables small GTPase binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in exocytosis	IBA Inferred from Biological aspect of Ancestor more info
involved_in exocytosis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within exocytosis	ISO Inferred from Sequence Orthology more info
involved_in exocytosis	ISS Inferred from Sequence or Structural Similarity more info
involved_in insulin secretion	IEA Inferred from Electronic Annotation more info
acts_upstream_of insulin secretion	ISO Inferred from Sequence Orthology more info
involved_in intracellular protein transport	IEA Inferred from Electronic Annotation more info
involved_in lysosome localization	IEA Inferred from Electronic Annotation more info
involved_in lysosome localization	ISO Inferred from Sequence Orthology more info
involved_in multivesicular body sorting pathway	IEA Inferred from Electronic Annotation more info
involved_in multivesicular body sorting pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of insulin secretion	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of insulin secretion	ISO Inferred from Sequence Orthology more info
involved_in plasma membrane repair	IEA Inferred from Electronic Annotation more info
involved_in plasma membrane repair	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of exocytosis	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of exocytosis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein secretion	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of protein secretion	ISO Inferred from Sequence Orthology more info
involved_in regulation of plasma membrane repair	IEA Inferred from Electronic Annotation more info
involved_in regulation of plasma membrane repair	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in apical plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in endosome	IEA Inferred from Electronic Annotation more info
located_in endosome	ISO Inferred from Sequence Orthology more info
is_active_in exocytic vesicle	IBA Inferred from Biological aspect of Ancestor more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in secretory granule	IEA Inferred from Electronic Annotation more info
located_in secretory granule	ISO Inferred from Sequence Orthology more info
located_in transport vesicle membrane	IEA Inferred from Electronic Annotation more info

General protein information

Go to the top of the page Help

Preferred Names: synaptotagmin-like protein 4

Names: exophilin-2; granuphilin b; synaptotagmin-like 4 (granuphilin-a)

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_080410.2 → NP_536335.2 synaptotagmin-like protein 4

Status: VALIDATED

Source sequence(s)

JAXUCZ010000021

UniProtKB/TrEMBL

A0A8I5ZMC6, A6IVE0

Related

ENSRNOP00000078420.1, ENSRNOT00000113853.1

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_086039.1 Reference GRCr8

Range

101428785..101479207 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_008773387.4 → XP_008771609.1 synaptotagmin-like protein 4 isoform X2

See identical proteins and their annotated locations for XP_008771609.1

UniProtKB/TrEMBL

A6IVE1, D3ZTZ2, G3V6G6

Related

ENSRNOP00000004921.4

Conserved Domains (2) summary

cd04029
Location:358 → 482

C2A_SLP-4_5; C2 domain first repeat present in Synaptotagmin-like proteins 4 and 5

cd15764
Location:58 → 107

FYVE_Slp4; FYVE-related domain found in synaptotagmin-like protein 4 (Slp4) and similar proteins
XM_063279763.1 → XP_063135833.1 synaptotagmin-like protein 4 isoform X2

UniProtKB/TrEMBL

A6IVE1, D3ZTZ2
XM_039099431.2 → XP_038955359.1 synaptotagmin-like protein 4 isoform X1

UniProtKB/Swiss-Prot

Q8VHQ6, Q8VHQ7

UniProtKB/TrEMBL

A0A8I5ZMC6, A6IVE0

Conserved Domains (4) summary

cd04020
Location:497 → 662

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cd04029
Location:358 → 482

C2A_SLP-4_5; C2 domain first repeat present in Synaptotagmin-like proteins 4 and 5

cd15764
Location:58 → 107

FYVE_Slp4; FYVE-related domain found in synaptotagmin-like protein 4 (Slp4) and similar proteins

cl22851
Location:8 → 121

PHD_SF; PHD finger superfamily
XM_063279762.1 → XP_063135832.1 synaptotagmin-like protein 4 isoform X2

UniProtKB/TrEMBL

A6IVE1, D3ZTZ2
XM_039099429.2 → XP_038955357.1 synaptotagmin-like protein 4 isoform X1

UniProtKB/Swiss-Prot

Q8VHQ6, Q8VHQ7

UniProtKB/TrEMBL

A0A8I5ZMC6, A6IVE0

Conserved Domains (4) summary

cd04020
Location:497 → 662

C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4

cd04029
Location:358 → 482

C2A_SLP-4_5; C2 domain first repeat present in Synaptotagmin-like proteins 4 and 5

cd15764
Location:58 → 107

FYVE_Slp4; FYVE-related domain found in synaptotagmin-like protein 4 (Slp4) and similar proteins

cl22851
Location:8 → 121

PHD_SF; PHD finger superfamily