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    SYTL1 synaptotagmin like 1 [ Homo sapiens (human) ]

    Gene ID: 84958, updated on 10-Dec-2024

    Summary

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    Official Symbol
    SYTL1provided by HGNC
    Official Full Name
    synaptotagmin like 1provided by HGNC
    Primary source
    HGNC:HGNC:15584
    See related
    Ensembl:ENSG00000142765 MIM:608042; AllianceGenome:HGNC:15584
    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
    JFC1; SLP1
    Summary
    Predicted to enable neurexin family protein binding activity. Involved in exocytosis. Located in plasma membrane. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in prostate (RPKM 24.6), skin (RPKM 21.7) and 16 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See SYTL1 in Genome Data Viewer
    Location:
    1p36.11
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (27342022..27353932)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (27183258..27195171)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (27668513..27680423)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 503 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 504 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 505 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 506 Neighboring gene WD and tetratricopeptide repeats 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 540 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 507 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:27613415-27614057 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27615731-27616716 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27625813-27626326 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 541 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27627354-27627866 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27627867-27628380 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27633747-27634272 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27634273-27634798 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27634799-27635323 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27648068-27648614 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:27648615-27649162 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:27649163-27649709 Neighboring gene actin gamma 1 pseudogene 20 Neighboring gene transmembrane protein 222 Neighboring gene RNA, U6 small nuclear 48, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 543 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 544 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27669148-27669765 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 545 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:27673548-27674088 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:27674089-27674627 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 508 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 509 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:27685945-27686480 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:27686481-27687016 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 546 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 510 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 511 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27692433-27693376 Neighboring gene mitogen-activated protein kinase kinase kinase 6 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27693377-27694318 Neighboring gene ficolin 3

    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. JFC1 is transcriptionally activated by nuclear factor-kappaB and up-regulated by tumour necrosis factor alpha in prostate carcinoma cells. Catz SD, et al. Biochem J, 2002 Nov 1. PMID 12137562, Free PMC Article
    2. Synaptotagmin-like protein 1 interacts with the GTPase-activating protein Rap1GAP2 and regulates dense granule secretion in platelets. Neumüller O, et al. Blood, 2009 Aug 13. PMID 19528539
    3. ELK1 suppresses SYTL1 expression by recruiting HDAC2 in bladder cancer progression. Wang J, et al. Hum Cell, 2022 Nov. PMID 36107384
    4. WTAP enhances the instability of SYTL1 mRNA caused by YTHDF2 in bladder cancer. Wang J, et al. Histol Histopathol, 2024 May. PMID 37933909
    5. JFC1, a novel tandem C2 domain-containing protein associated with the leukocyte NADPH oxidase. McAdara Berkowitz JK, et al. J Biol Chem, 2001 Jun 1. PMID 11278853

    See all (31) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. WTAP enhances the instability of SYTL1 mRNA caused by YTHDF2 in bladder cancer.
      Title: WTAP enhances the instability of SYTL1 mRNA caused by YTHDF2 in bladder cancer.
    2. ELK1 suppresses SYTL1 expression by recruiting HDAC2 in bladder cancer progression.
      Title: ELK1 suppresses SYTL1 expression by recruiting HDAC2 in bladder cancer progression.
    3. results reveal that MEIS1, through induction of SYTL1, promotes leukemogenesis and supports leukemic cell homing and engraftment, facilitating interactions between leukemic cells and bone marrow stroma.
      Title: MEIS1-mediated transactivation of synaptotagmin-like 1 promotes CXCL12/CXCR4 signaling and leukemogenesis.
    4. Cdk2 also binds the N-terminal domain of Fbw7-gamma as well as SLP-1.
      Title: The stomatin-like protein SLP-1 and Cdk2 interact with the F-Box protein Fbw7-γ.
    5. during exocytosis, actin depolymerization commences near the secretory organelle, not the plasma membrane, and secretory granules use a JFC1- and GMIP-dependent molecular mechanism to traverse cortical actin.
      Title: Vesicular trafficking through cortical actin during exocytosis is regulated by the Rab27a effector JFC1/Slp1 and the RhoA-GTPase-activating protein Gem-interacting protein.
    6. Slp1 inhibits dense granule secretion in platelets and that Rap1GAP2 modulates secretion by binding to Slp1.
      Title: Synaptotagmin-like protein 1 interacts with the GTPase-activating protein Rap1GAP2 and regulates dense granule secretion in platelets.
    7. These results suggest that both Slp1 and Slp2-a may form part of a docking complex, capturing secretory lysosomes at the immunological synapse.
      Title: Slp1 and Slp2-a localize to the plasma membrane of CTL and contribute to secretion from the immunological synapse.
    8. transcriptional activation of JFC1 by the TNFalpha/NF-kappaB pathway is significant in prostate carcinoma cell lines
      Title: JFC1 is transcriptionally activated by nuclear factor-kappaB and up-regulated by tumour necrosis factor alpha in prostate carcinoma cells.
    9. evidence that JFC1 differentially regulates the secretion of PSAP and PSA, and that Rab27a and PI3K play a central role in the exocytosis of prostate-specific markers
      Title: The Rab27a-binding protein, JFC1, regulates androgen-dependent secretion of prostate-specific antigen and prostatic-specific acid phosphatase.
    10. Jfc1/synaptotagmin-like protein 1 (Slp1) contains an N-terminal Slp homology domain (SHD) (PMID: 11327731). The SHD of Slp1/Jfc1 specifically and directly binds the GTP-bound form of Rab27A (J. Biol. Chem. 277, (2002) 9212-9218; PMID: 11773082).
      Title: The Slp homology domain of synaptotagmin-like proteins 1-4 and Slac2 functions as a novel Rab27A binding domain.
    Submit: New GeneRIF Correction

    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)

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ14996

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables neurexin family protein binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables neurexin family protein 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 IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in intracellular protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in exocytic vesicle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular exosome HDA PubMed 
    located_in melanosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in microvillus membrane TAS
    Traceable Author Statement
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plasma membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    synaptotagmin-like protein 1
    Names
    NADPH oxidase-related, C2 domain-containing protein
    exophilin-7

    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_001193308.2 → NP_001180237.1  synaptotagmin-like protein 1 isoform 1

      See identical proteins and their annotated locations for NP_001180237.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer protein (isoform 1).
      Source sequence(s)
      BC035725, DA948740
      Consensus CDS
      CCDS53286.1
      UniProtKB/Swiss-Prot
      Q5SSC9, Q8IYJ3, Q96BB6, Q96GU6, Q96S89, Q96SI0
      UniProtKB/TrEMBL
      A8KAH3
      Related
      ENSP00000481032.1, ENST00000616558.5
      Conserved Domains (3) summary
      cd04020
      Location:399 → 555
      C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
      cd08393
      Location:267 → 386
      C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2
      cl22851
      Location:35 → 99
      PHD_SF; PHD finger superfamily

    2. NM_032872.3 → NP_116261.1  synaptotagmin-like protein 1 isoform 2

      See identical proteins and their annotated locations for NP_116261.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses a different splice site in the coding region, compared to variant 1. The resulting protein (isoform 2) is shorter when it is compared to isoform 1.
      Source sequence(s)
      AK027902, CB851688
      Consensus CDS
      CCDS298.1
      UniProtKB/TrEMBL
      A8KAH3
      Related
      ENSP00000316464.5, ENST00000318074.9
      Conserved Domains (3) summary
      cd04020
      Location:387 → 543
      C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
      cd08393
      Location:255 → 374
      C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2
      cl22851
      Location:35 → 99
      PHD_SF; PHD finger superfamily

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      27342022..27353932
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005246022.4 → XP_005246079.1  synaptotagmin-like protein 1 isoform X1

      UniProtKB/TrEMBL
      A8KAH3
      Related
      ENST00000483926.5
      Conserved Domains (3) summary
      cd04020
      Location:431 → 587
      C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
      cd08393
      Location:299 → 418
      C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2
      cl22851
      Location:67 → 131
      PHD_SF; PHD finger superfamily

    2. XM_006710990.2 → XP_006711053.1  synaptotagmin-like protein 1 isoform X2

      UniProtKB/TrEMBL
      A8KAH3
      Conserved Domains (3) summary
      cd04020
      Location:419 → 575
      C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
      cd08393
      Location:287 → 406
      C2A_SLP-1_2; C2 domain first repeat present in Synaptotagmin-like proteins 1 and 2
      cl22851
      Location:67 → 131
      PHD_SF; PHD finger superfamily

    3. XM_047432563.1 → XP_047288519.1  synaptotagmin-like protein 1 isoform X3

    4. XM_047432574.1 → XP_047288530.1  synaptotagmin-like protein 1 isoform X4

    5. XM_047432582.1 → XP_047288538.1  synaptotagmin-like protein 1 isoform X5

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      27183258..27195171
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054339273.1 → XP_054195248.1  synaptotagmin-like protein 1 isoform X1

      UniProtKB/TrEMBL
      A8KAH3

    2. XM_054339274.1 → XP_054195249.1  synaptotagmin-like protein 1 isoform X2

      UniProtKB/TrEMBL
      A8KAH3

    3. XM_054339275.1 → XP_054195250.1  synaptotagmin-like protein 1 isoform X3

    4. XM_054339276.1 → XP_054195251.1  synaptotagmin-like protein 1 isoform X4

    5. XM_054339277.1 → XP_054195252.1  synaptotagmin-like protein 1 isoform X5

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8IYJ3.1 GenPept UniProtKB/Swiss-Prot:Q8IYJ3

    Gene LinkOut

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

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