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    SYT3 synaptotagmin 3 [ Homo sapiens (human) ]

    Gene ID: 84258, updated on 11-Apr-2024

    Summary

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    Official Symbol
    SYT3provided by HGNC
    Official Full Name
    synaptotagmin 3provided by HGNC
    Primary source
    HGNC:HGNC:11511
    See related
    Ensembl:ENSG00000213023 MIM:600327; AllianceGenome:HGNC:11511
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    SytIII
    Summary
    Predicted to enable several functions, including phospholipid binding activity; protein dimerization activity; and syntaxin binding activity. Involved in positive regulation of dendrite extension. Located in endosome. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in brain (RPKM 3.3), testis (RPKM 0.5) and 3 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See SYT3 in Genome Data Viewer
    Location:
    19q13.33
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (50621977..50658105, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (53710730..53746830, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (51125234..51143138, complement)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124904747 Neighboring gene leucine rich repeat containing 4B Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14993 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:51055019-51055930 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10972 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10973 Neighboring gene CRISPRi-validated cis-regulatory element chr19.5650 Neighboring gene small NF90 (ILF3) associated RNA F Neighboring gene Sharpr-MPRA regulatory region 12037 Neighboring gene Sharpr-MPRA regulatory region 12891 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14994 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14995 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10974 Neighboring gene chromosome 19 open reading frame 81 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:51165023-51165681 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:51165682-51166339 Neighboring gene SH3 and multiple ankyrin repeat domains 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10975 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10976 Neighboring gene C-type lectin domain containing 11A

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. The C terminus of SNAP25 is essential for Ca(2+)-dependent binding of synaptotagmin to SNARE complexes. Gerona RR, et al. J Biol Chem, 2000 Mar 3. PMID 10692432
    2. Control of plasma membrane lipid homeostasis by the extended synaptotagmins. Saheki Y, et al. Nat Cell Biol, 2016 May. PMID 27065097, Free PMC Article
    3. Sr2+ binding to the Ca2+ binding site of the synaptotagmin 1 C2B domain triggers fast exocytosis without stimulating SNARE interactions. Shin OH, et al. Neuron, 2003 Jan 9. PMID 12526776
    4. Synaptotagmin genes on mouse chromosomes 1, 7, and 10 and human chromosome 19. Jones JM, et al. Mamm Genome, 1995 Mar. PMID 7749232
    5. SYNCRIP, a cytoplasmic counterpart of heterogeneous nuclear ribonucleoprotein R, interacts with ubiquitous synaptotagmin isoforms. Mizutani A, et al. J Biol Chem, 2000 Mar 31. PMID 10734137

    See all (25) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Clone Names

    • DKFZp761O132

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables SNARE binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables calcium ion binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables calcium-dependent phospholipid binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables calcium-dependent phospholipid binding NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    enables clathrin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables phosphatidylserine binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in calcium-ion regulated exocytosis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of dendrite extension IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in endosome IDA
    Inferred from Direct Assay
    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 transport vesicle membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    synaptotagmin-3
    Names
    synaptotagmin III

    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_001160328.2 → NP_001153800.1  synaptotagmin-3

      See identical proteins and their annotated locations for NP_001153800.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1, 2 and 3 encode the same protein.
      Source sequence(s)
      AC008743
      Consensus CDS
      CCDS12798.1
      UniProtKB/Swiss-Prot
      Q8N5Z1, Q8N640, Q9BQG1
      Related
      ENSP00000468982.1, ENST00000593901.5
      Conserved Domains (2) summary
      cd08385
      Location:299 → 424
      C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10
      cd08403
      Location:433 → 567
      C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10

    2. NM_001160329.2 → NP_001153801.1  synaptotagmin-3

      See identical proteins and their annotated locations for NP_001153801.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1, 2 and 3 encode the same protein.
      Source sequence(s)
      AC008743
      Consensus CDS
      CCDS12798.1
      UniProtKB/Swiss-Prot
      Q8N5Z1, Q8N640, Q9BQG1
      Related
      ENSP00000469398.1, ENST00000600079.6
      Conserved Domains (2) summary
      cd08385
      Location:299 → 424
      C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10
      cd08403
      Location:433 → 567
      C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10

    3. NM_001424344.1 → NP_001411273.1  synaptotagmin-3

      Status: VALIDATED

      Source sequence(s)
      AC008743
      UniProtKB/Swiss-Prot
      Q8N5Z1, Q8N640, Q9BQG1

    4. NM_001424345.1 → NP_001411274.1  synaptotagmin-3

      Status: VALIDATED

      Source sequence(s)
      AC008743
      UniProtKB/Swiss-Prot
      Q8N5Z1, Q8N640, Q9BQG1

    5. NM_001424346.1 → NP_001411275.1  synaptotagmin-3

      Status: VALIDATED

      Source sequence(s)
      AC008743
      UniProtKB/Swiss-Prot
      Q8N5Z1, Q8N640, Q9BQG1

    6. NM_001424347.1 → NP_001411276.1  synaptotagmin-3

      Status: VALIDATED

      Source sequence(s)
      CP068259
      UniProtKB/Swiss-Prot
      Q8N5Z1, Q8N640, Q9BQG1

    7. NM_001424348.1 → NP_001411277.1  synaptotagmin-3

      Status: VALIDATED

      Source sequence(s)
      CP068259
      UniProtKB/Swiss-Prot
      Q8N5Z1, Q8N640, Q9BQG1

    8. NM_001424349.1 → NP_001411278.1  synaptotagmin-3

      Status: VALIDATED

      Source sequence(s)
      CP068259
      UniProtKB/Swiss-Prot
      Q8N5Z1, Q8N640, Q9BQG1

    9. NM_001424350.1 → NP_001411279.1  synaptotagmin-3

      Status: VALIDATED

      Source sequence(s)
      CP068259
      UniProtKB/Swiss-Prot
      Q8N5Z1, Q8N640, Q9BQG1

    10. NM_032298.3 → NP_115674.1  synaptotagmin-3

      See identical proteins and their annotated locations for NP_115674.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2 and 3 encode the same protein.
      Source sequence(s)
      AC008743
      Consensus CDS
      CCDS12798.1
      UniProtKB/Swiss-Prot
      Q8N5Z1, Q8N640, Q9BQG1
      Related
      ENSP00000340914.3, ENST00000338916.8
      Conserved Domains (2) summary
      cd08385
      Location:299 → 424
      C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10
      cd08403
      Location:433 → 567
      C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      50621977..50658105 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      53710730..53746830 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9BQG1.1 GenPept UniProtKB/Swiss-Prot:Q9BQG1

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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