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SYTL5 synaptotagmin like 5 [ Homo sapiens (human) ]

Gene ID: 94122, updated on 27-Nov-2024

Summary

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Official Symbol
SYTL5provided by HGNC
Official Full Name
synaptotagmin like 5provided by HGNC
Primary source
HGNC:HGNC:15589
See related
Ensembl:ENSG00000147041 MIM:301126; AllianceGenome:HGNC:15589
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
slp5
Summary
The protein encoded by this gene belongs to the synaptotagmin-like (Slp) protein family, which contains a unique homology domain at the N-terminus, referred to as the Slp homology domain (SHD). The SHD functions as a binding site for Rab27A, which plays a role in protein transport. Expression of this gene is restricted to placenta and liver, suggesting that it might be involved in Rab27A-dependent membrane trafficking in specific tissues. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2009]
Expression
Broad expression in stomach (RPKM 4.3), placenta (RPKM 2.5) and 17 other tissues See more
Orthologs
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Genomic context

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See SYTL5 in Genome Data Viewer
Location:
Xp11.4
Exon count:
26
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (37888915..38128820)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (37292501..37532417)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (37865806..37988073)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20733 Neighboring gene dynein light chain Tctex-type 3 Neighboring gene RNA, U6 small nuclear 49, pseudogene Neighboring gene sterol-C4-methyl oxidase pseudogene Neighboring gene H2A.L variant histone 3 Neighboring gene H2A.P histone Neighboring gene microRNA 548aj-2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20734 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29521 Neighboring gene sushi repeat containing protein X-linked Neighboring gene uncharacterized LOC124905176

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. SYTL5 Promotes Papillary Thyroid Carcinoma Progression by Enhancing Activation of the NF-κB Signaling Pathway. Huang D, et al. Endocrinology, 2022 Nov 14. PMID 36378561
  2. Rab27a regulates epithelial sodium channel (ENaC) activity through synaptotagmin-like protein (SLP-5) and Munc13-4 effector mechanism. Saxena SK, et al. Biochem Biophys Res Commun, 2006 Jun 2. PMID 16630545
  3. Synaptotagmin-mediated vesicle fusion regulates cell migration. Colvin RA, et al. Nat Immunol, 2010 Jun. PMID 20473299, Free PMC Article
  4. Synaptotagmin-like protein 5: a novel Rab27A effector with C-terminal tandem C2 domains. Kuroda TS, et al. Biochem Biophys Res Commun, 2002 May 10. PMID 12051743
  5. Genome-wide association study to identify single nucleotide polymorphisms (SNPs) associated with the development of erectile dysfunction in African-American men after radiotherapy for prostate cancer. Kerns SL, et al. Int J Radiat Oncol Biol Phys, 2010 Dec 1. PMID 20932654, Free PMC Article

See all (18) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. SYTL5 Promotes Papillary Thyroid Carcinoma Progression by Enhancing Activation of the NF-kappaB Signaling Pathway.
    Title: SYTL5 Promotes Papillary Thyroid Carcinoma Progression by Enhancing Activation of the NF-κB Signaling Pathway.
  2. These observations decisively prove that Rab27a inhibits ENaC function through a complex mechanism that involves GTP/GDP status, and protein-protein interactions involving Munc13-4 and SLP-5 effector proteins.
    Title: Rab27a regulates epithelial sodium channel (ENaC) activity through synaptotagmin-like protein (SLP-5) and Munc13-4 effector mechanism.
  3. molecular cloning of slp5:a novel Rab27A effector with C-terminal tandem C2 domains
    Title: Synaptotagmin-like protein 5: a novel Rab27A effector with C-terminal tandem C2 domains.
  4. Synaptotagmin-like protein 5 (Slp5) contains an N-terminal Slp homology domain (SHD) (PMID: 11327731). The SHD of Slp5 specifically and directly binds the GTP-bound form of Rab27A.
    Title: Synaptotagmin-like protein 5: a novel Rab27A effector with C-terminal tandem C2 domains.
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

EBI GWAS Catalog

Description
Genetic variants associated with disordered eating.
EBI GWAS Catalog
Genome-wide association study to identify single nucleotide polymorphisms (SNPs) associated with the development of erectile dysfunction in African-American men after radiotherapy for prostate cancer.
EBI GWAS Catalog

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

  • AL121578.2

Gene Ontology Provided by GOA

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 phospholipid binding IEA
Inferred from Electronic Annotation
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 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
  
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
synaptotagmin-like protein 5
Names
exophilin 9

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.

Genomic

  1. NG_013265.2 RefSeqGene

    Range
    122640..244903
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001163334.1 → NP_001156806.1  synaptotagmin-like protein 5 isoform 2

    See identical proteins and their annotated locations for NP_001156806.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) contains an in-frame coding exon missing in variant 1, resulting in a longer isoform (2) with an additional 22 aa protein segment compared to isoform 1.
    Source sequence(s)
    AK125106, AL135038, BC131585, BX647688
    Consensus CDS
    CCDS55399.1
    UniProtKB/Swiss-Prot
    Q8TDW5
    Related
    ENSP00000395220.2, ENST00000456733.2
    Conserved Domains (5) summary
    cd04020
    Location:566 → 744
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cd04029
    Location:429 → 552
    C2A_SLP-4_5; C2 domain first repeat present in Synaptotagmin-like proteins 4 and 5
    cd15766
    Location:62 → 108
    FYVE_Slp5; FYVE-related domain found in synaptotagmin-like protein 5 (Slp5) and similar proteins
    pfam15308
    Location:159 → 309
    CEP170_C; CEP170 C-terminus
    cl22851
    Location:11 → 123
    PHD_SF; PHD finger superfamily

  2. NM_001163335.2 → NP_001156807.1  synaptotagmin-like protein 5 isoform 1

    See identical proteins and their annotated locations for NP_001156807.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same isoform (1).
    Source sequence(s)
    AB080222, AK125106, AL121578, AL135038, BX647688
    Consensus CDS
    CCDS14244.1
    UniProtKB/Swiss-Prot
    A2RRF2, Q8TDW5
    Conserved Domains (3) summary
    cd04020
    Location:544 → 722
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cd04029
    Location:407 → 530
    C2A_SLP-4_5; C2 domain first repeat present in Synaptotagmin-like proteins 4 and 5
    cd15766
    Location:62 → 108
    FYVE_Slp5; FYVE-related domain found in synaptotagmin-like protein 5 (Slp5) and similar proteins

  3. NM_138780.3 → NP_620135.1  synaptotagmin-like protein 5 isoform 1

    See identical proteins and their annotated locations for NP_620135.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the shorter isoform (1). Variants 1 and 2 encode the same isoform.
    Source sequence(s)
    AB080222, AK125106, AL121578, AL135038, BX647688
    Consensus CDS
    CCDS14244.1
    UniProtKB/Swiss-Prot
    A2RRF2, Q8TDW5
    Related
    ENSP00000297875.2, ENST00000297875.7
    Conserved Domains (3) summary
    cd04020
    Location:544 → 722
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cd04029
    Location:407 → 530
    C2A_SLP-4_5; C2 domain first repeat present in Synaptotagmin-like proteins 4 and 5
    cd15766
    Location:62 → 108
    FYVE_Slp5; FYVE-related domain found in synaptotagmin-like protein 5 (Slp5) and similar proteins

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_000023.11 Reference GRCh38.p14 Primary Assembly

    Range
    37888915..38128820
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017029972.1 → XP_016885461.1  synaptotagmin-like protein 5 isoform X1

    UniProtKB/Swiss-Prot
    Q8TDW5
    Conserved Domains (5) summary
    cd04020
    Location:566 → 744
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cd04029
    Location:429 → 552
    C2A_SLP-4_5; C2 domain first repeat present in Synaptotagmin-like proteins 4 and 5
    cd15766
    Location:62 → 108
    FYVE_Slp5; FYVE-related domain found in synaptotagmin-like protein 5 (Slp5) and similar proteins
    pfam15308
    Location:159 → 309
    CEP170_C; CEP170 C-terminus
    cl22851
    Location:11 → 123
    PHD_SF; PHD finger superfamily

  2. XM_047442658.1 → XP_047298614.1  synaptotagmin-like protein 5 isoform X3

    UniProtKB/Swiss-Prot
    A2RRF2, Q8TDW5

  3. XM_011544001.3 → XP_011542303.1  synaptotagmin-like protein 5 isoform X1

    See identical proteins and their annotated locations for XP_011542303.1

    UniProtKB/Swiss-Prot
    Q8TDW5
    Conserved Domains (5) summary
    cd04020
    Location:566 → 744
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cd04029
    Location:429 → 552
    C2A_SLP-4_5; C2 domain first repeat present in Synaptotagmin-like proteins 4 and 5
    cd15766
    Location:62 → 108
    FYVE_Slp5; FYVE-related domain found in synaptotagmin-like protein 5 (Slp5) and similar proteins
    pfam15308
    Location:159 → 309
    CEP170_C; CEP170 C-terminus
    cl22851
    Location:11 → 123
    PHD_SF; PHD finger superfamily

  4. XM_047442654.1 → XP_047298610.1  synaptotagmin-like protein 5 isoform X3

    UniProtKB/Swiss-Prot
    A2RRF2, Q8TDW5

  5. XM_047442663.1 → XP_047298619.1  synaptotagmin-like protein 5 isoform X4

  6. XM_017029974.2 → XP_016885463.1  synaptotagmin-like protein 5 isoform X1

    UniProtKB/Swiss-Prot
    Q8TDW5
    Conserved Domains (5) summary
    cd04020
    Location:566 → 744
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cd04029
    Location:429 → 552
    C2A_SLP-4_5; C2 domain first repeat present in Synaptotagmin-like proteins 4 and 5
    cd15766
    Location:62 → 108
    FYVE_Slp5; FYVE-related domain found in synaptotagmin-like protein 5 (Slp5) and similar proteins
    pfam15308
    Location:159 → 309
    CEP170_C; CEP170 C-terminus
    cl22851
    Location:11 → 123
    PHD_SF; PHD finger superfamily

  7. XM_047442655.1 → XP_047298611.1  synaptotagmin-like protein 5 isoform X3

    UniProtKB/Swiss-Prot
    A2RRF2, Q8TDW5

  8. XM_047442669.1 → XP_047298625.1  synaptotagmin-like protein 5 isoform X5

  9. XM_047442660.1 → XP_047298616.1  synaptotagmin-like protein 5 isoform X4

  10. XM_047442652.1 → XP_047298608.1  synaptotagmin-like protein 5 isoform X1

  11. XM_047442657.1 → XP_047298613.1  synaptotagmin-like protein 5 isoform X3

    UniProtKB/Swiss-Prot
    A2RRF2, Q8TDW5

  12. XM_047442670.1 → XP_047298626.1  synaptotagmin-like protein 5 isoform X5

  13. XM_047442666.1 → XP_047298622.1  synaptotagmin-like protein 5 isoform X4

  14. XM_011544002.3 → XP_011542304.1  synaptotagmin-like protein 5 isoform X1

    See identical proteins and their annotated locations for XP_011542304.1

    UniProtKB/Swiss-Prot
    Q8TDW5
    Conserved Domains (5) summary
    cd04020
    Location:566 → 744
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cd04029
    Location:429 → 552
    C2A_SLP-4_5; C2 domain first repeat present in Synaptotagmin-like proteins 4 and 5
    cd15766
    Location:62 → 108
    FYVE_Slp5; FYVE-related domain found in synaptotagmin-like protein 5 (Slp5) and similar proteins
    pfam15308
    Location:159 → 309
    CEP170_C; CEP170 C-terminus
    cl22851
    Location:11 → 123
    PHD_SF; PHD finger superfamily

  15. XM_047442656.1 → XP_047298612.1  synaptotagmin-like protein 5 isoform X3

    UniProtKB/Swiss-Prot
    A2RRF2, Q8TDW5

  16. XM_047442653.1 → XP_047298609.1  synaptotagmin-like protein 5 isoform X2

  17. XM_047442664.1 → XP_047298620.1  synaptotagmin-like protein 5 isoform X4

  18. XM_017029973.2 → XP_016885462.1  synaptotagmin-like protein 5 isoform X1

    UniProtKB/Swiss-Prot
    Q8TDW5
    Conserved Domains (5) summary
    cd04020
    Location:566 → 744
    C2B_SLP_1-2-3-4; C2 domain second repeat present in Synaptotagmin-like proteins 1-4
    cd04029
    Location:429 → 552
    C2A_SLP-4_5; C2 domain first repeat present in Synaptotagmin-like proteins 4 and 5
    cd15766
    Location:62 → 108
    FYVE_Slp5; FYVE-related domain found in synaptotagmin-like protein 5 (Slp5) and similar proteins
    pfam15308
    Location:159 → 309
    CEP170_C; CEP170 C-terminus
    cl22851
    Location:11 → 123
    PHD_SF; PHD finger superfamily

  19. XM_047442659.1 → XP_047298615.1  synaptotagmin-like protein 5 isoform X3

    UniProtKB/Swiss-Prot
    A2RRF2, Q8TDW5

  20. XM_047442665.1 → XP_047298621.1  synaptotagmin-like protein 5 isoform X4

  21. XM_047442667.1 → XP_047298623.1  synaptotagmin-like protein 5 isoform X4

  22. XM_047442662.1 → XP_047298618.1  synaptotagmin-like protein 5 isoform X4

  23. XM_047442668.1 → XP_047298624.1  synaptotagmin-like protein 5 isoform X5

  24. XM_047442661.1 → XP_047298617.1  synaptotagmin-like protein 5 isoform X4

  25. XM_047442671.1 → XP_047298627.1  synaptotagmin-like protein 5 isoform X6

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    37292501..37532417
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054328146.1 → XP_054184121.1  synaptotagmin-like protein 5 isoform X1

  2. XM_054328155.1 → XP_054184130.1  synaptotagmin-like protein 5 isoform X3

    UniProtKB/Swiss-Prot
    A2RRF2, Q8TDW5

  3. XM_054328153.1 → XP_054184128.1  synaptotagmin-like protein 5 isoform X3

    UniProtKB/Swiss-Prot
    A2RRF2, Q8TDW5

  4. XM_054328149.1 → XP_054184124.1  synaptotagmin-like protein 5 isoform X2

  5. XM_054328162.1 → XP_054184137.1  synaptotagmin-like protein 5 isoform X4

  6. XM_054328154.1 → XP_054184129.1  synaptotagmin-like protein 5 isoform X3

    UniProtKB/Swiss-Prot
    A2RRF2, Q8TDW5

  7. XM_054328145.1 → XP_054184120.1  synaptotagmin-like protein 5 isoform X1

  8. XM_054328158.1 → XP_054184133.1  synaptotagmin-like protein 5 isoform X4

  9. XM_054328147.1 → XP_054184122.1  synaptotagmin-like protein 5 isoform X1

  10. XM_054328159.1 → XP_054184134.1  synaptotagmin-like protein 5 isoform X4

  11. XM_054328150.1 → XP_054184125.1  synaptotagmin-like protein 5 isoform X3

    UniProtKB/Swiss-Prot
    A2RRF2, Q8TDW5

  12. XM_054328161.1 → XP_054184136.1  synaptotagmin-like protein 5 isoform X4

  13. XM_054328165.1 → XP_054184140.1  synaptotagmin-like protein 5 isoform X5

  14. XM_054328148.1 → XP_054184123.1  synaptotagmin-like protein 5 isoform X1

  15. XM_054328166.1 → XP_054184141.1  synaptotagmin-like protein 5 isoform X5

  16. XM_054328143.1 → XP_054184118.1  synaptotagmin-like protein 5 isoform X1

  17. XM_054328151.1 → XP_054184126.1  synaptotagmin-like protein 5 isoform X3

    UniProtKB/Swiss-Prot
    A2RRF2, Q8TDW5

  18. XM_054328163.1 → XP_054184138.1  synaptotagmin-like protein 5 isoform X4

  19. XM_054328160.1 → XP_054184135.1  synaptotagmin-like protein 5 isoform X4

  20. XM_054328152.1 → XP_054184127.1  synaptotagmin-like protein 5 isoform X3

    UniProtKB/Swiss-Prot
    A2RRF2, Q8TDW5

  21. XM_054328144.1 → XP_054184119.1  synaptotagmin-like protein 5 isoform X1

  22. XM_054328157.1 → XP_054184132.1  synaptotagmin-like protein 5 isoform X4

  23. XM_054328164.1 → XP_054184139.1  synaptotagmin-like protein 5 isoform X5

  24. XM_054328156.1 → XP_054184131.1  synaptotagmin-like protein 5 isoform X4

  25. XM_054328167.1 → XP_054184142.1  synaptotagmin-like protein 5 isoform X6

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8TDW5.1 GenPept UniProtKB/Swiss-Prot:Q8TDW5

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