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Sytl4 synaptotagmin-like 4 [ Mus musculus (house mouse) ]

Gene ID: 27359, updated on 26-Sep-2022

Summary

Official Symbol
Sytl4provided by MGI
Official Full Name
synaptotagmin-like 4provided by MGI
Primary source
MGI:MGI:1351606
See related
Ensembl:ENSMUSG00000031255 AllianceGenome:MGI:1351606
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
Gph; Slp4
Summary
Enables neurexin family protein binding activity and phospholipid binding activity. Acts upstream of or within exocytosis and negative regulation of insulin secretion. Located in secretory granule. Is extrinsic component of membrane. Is expressed in diencephalon lateral wall ventricular layer; endocrine gland; foregut-midgut junction; and paravertebral ganglion. Orthologous to human SYTL4 (synaptotagmin like 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in genital fat pad adult (RPKM 13.0), bladder adult (RPKM 1.7) and 3 other tissues See more
Orthologs
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Genomic context

See Sytl4 in Genome Data Viewer
Location:
X; X E3
Exon count:
17
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) X NC_000086.8 (132837134..132882569, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (133936385..133981821, complement)

Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene tetraspanin 6 Neighboring gene sushi-repeat-containing protein, X-linked 2 Neighboring gene predicted gene 7841 Neighboring gene cleavage stimulation factor, 3' pre-RNA subunit 2 Neighboring gene microRNA 3112

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1)  1 citation
  • Endonuclease-mediated (1) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

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
PubMed 
enables neurexin family protein binding IDA
Inferred from Direct Assay
more info
PubMed 
enables phospholipid binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables small GTPase binding IEA
Inferred from Electronic Annotation
more info
 
enables zinc ion binding NAS
Non-traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
involved_in exocytosis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within exocytosis IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of insulin secretion IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in intracellular protein transport IEA
Inferred from Electronic Annotation
more info
 
involved_in lysosome localization ISO
Inferred from Sequence Orthology
more info
 
involved_in multivesicular body sorting pathway ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within negative regulation of insulin secretion IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in plasma membrane repair ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of exocytosis ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of protein secretion ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasmic vesicle 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
PubMed 
located_in extrinsic component of membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in secretory granule IDA
Inferred from Direct Assay
more info
PubMed 
located_in secretory granule membrane ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
synaptotagmin-like protein 4
Names
exophilin-2
granuphilin-a
granuphilin-b

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)

  1. NM_001290717.1NP_001277646.1  synaptotagmin-like protein 4 isoform 2

    See identical proteins and their annotated locations for NP_001277646.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks three alternate exons, which results in a frameshift, compared to variant 1. The encoded isoform (2) has a distinct C-terminus and is shorter than isoform 1. Variants 2 and 3 encode the same isoform (2).
    Source sequence(s)
    AB025258, AK161582, AL691421, BX510358
    Consensus CDS
    CCDS72429.1
    UniProtKB/Swiss-Prot
    Q9R0Q1
    Related
    ENSMUSP00000108922.3, ENSMUST00000113297.9
    Conserved Domains (2) summary
    cd04029
    Location:359483
    C2A_SLP-4_5; C2 domain first repeat present in Synaptotagmin-like proteins 4 and 5
    cd15764
    Location:58107
    FYVE_Slp4; FYVE-related domain found in synaptotagmin-like protein 4 (Slp4) and similar proteins
  2. NM_001290718.1NP_001277647.1  synaptotagmin-like protein 4 isoform 2

    See identical proteins and their annotated locations for NP_001277647.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site in the 5' UTR and lacks three alternate exons, which results in a frameshift, compared to variant 1. The encoded isoform (2) has a distinct C-terminus and is shorter than isoform 1. Variants 2 and 3 encode the same isoform (2).
    Source sequence(s)
    AB025258, AK030401, BX510358
    Consensus CDS
    CCDS72429.1
    UniProtKB/Swiss-Prot
    Q9R0Q1
    Conserved Domains (2) summary
    cd04029
    Location:359483
    C2A_SLP-4_5; C2 domain first repeat present in Synaptotagmin-like proteins 4 and 5
    cd15764
    Location:58107
    FYVE_Slp4; FYVE-related domain found in synaptotagmin-like protein 4 (Slp4) and similar proteins
  3. NM_001290719.1NP_001277648.1  synaptotagmin-like protein 4 isoform 3

    See identical proteins and their annotated locations for NP_001277648.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks multiple 3' coding exons and its transcription extends past a splice site used in variant 1, resulting in a different 3' coding region and 3' UTR. The encoded isoform (3) has a distinct C-terminus and is shorter than isoform 1.
    Source sequence(s)
    AB025258, AL691421, BX510358
    Consensus CDS
    CCDS81169.1
    UniProtKB/Swiss-Prot
    Q9R0Q1
    Related
    ENSMUSP00000108919.2, ENSMUST00000113294.8
    Conserved Domains (2) summary
    cd04029
    Location:359483
    C2A_SLP-4_5; C2 domain first repeat present in Synaptotagmin-like proteins 4 and 5
    cd15764
    Location:58107
    FYVE_Slp4; FYVE-related domain found in synaptotagmin-like protein 4 (Slp4) and similar proteins
  4. NM_013757.2NP_038785.1  synaptotagmin-like protein 4 isoform 1

    See identical proteins and their annotated locations for NP_038785.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AB025258, BX510358
    Consensus CDS
    CCDS30388.1
    UniProtKB/Swiss-Prot
    Q9R0Q0, Q9R0Q1
    UniProtKB/TrEMBL
    Q549X6
    Related
    ENSMUSP00000033608.9, ENSMUST00000033608.15
    Conserved Domains (4) summary
    cd04020
    Location:498663
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cd04029
    Location:359483
    C2A_SLP-4_5; C2 domain first repeat present in Synaptotagmin-like proteins 4 and 5
    cd15764
    Location:58107
    FYVE_Slp4; FYVE-related domain found in synaptotagmin-like protein 4 (Slp4) and similar proteins
    cl22851
    Location:8121
    PHD_SF; PHD finger superfamily

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000086.8 Reference GRCm39 C57BL/6J

    Range
    132837134..132882569 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006528551.4XP_006528614.1  synaptotagmin-like protein 4 isoform X1

    See identical proteins and their annotated locations for XP_006528614.1

    UniProtKB/Swiss-Prot
    Q9R0Q0, Q9R0Q1
    UniProtKB/TrEMBL
    Q549X6
    Conserved Domains (4) summary
    cd04020
    Location:498663
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cd04029
    Location:359483
    C2A_SLP-4_5; C2 domain first repeat present in Synaptotagmin-like proteins 4 and 5
    cd15764
    Location:58107
    FYVE_Slp4; FYVE-related domain found in synaptotagmin-like protein 4 (Slp4) and similar proteins
    cl22851
    Location:8121
    PHD_SF; PHD finger superfamily