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Aliases for SYMPK Gene

Aliases for SYMPK Gene

  • Symplekin 2 3
  • SPK 3 4 6
  • SYM 3

External Ids for SYMPK Gene

Summaries for SYMPK Gene

Entrez Gene Summary for SYMPK Gene

  • This gene encodes a nuclear protein that functions in the regulation of polyadenylation and promotes gene expression. The protein forms a high-molecular weight complex with components of the polyadenylation machinery. It is thought to serve as a scaffold for recruiting regulatory factors to the polyadenylation complex. It also participates in 3'-end maturation of histone mRNAs, which do not undergo polyadenylation. The protein also localizes to the cytoplasmic plaques of tight junctions in some cell types. [provided by RefSeq, Jul 2008]

GeneCards Summary for SYMPK Gene

SYMPK (Symplekin) is a Protein Coding gene. Among its related pathways are Translational Control and Sertoli-Sertoli Cell Junction Dynamics.

UniProtKB/Swiss-Prot for SYMPK Gene

  • Scaffold protein that functions as a component of a multimolecular complex involved in histone mRNA 3-end processing. Specific component of the tight junction (TJ) plaque, but might not be an exclusively junctional component. May have a house-keeping rule. Is involved in pre-mRNA polyadenylation. Enhances SSU72 phosphatase activity.

Gene Wiki entry for SYMPK Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SYMPK Gene

Genomics for SYMPK Gene

Genomic Location for SYMPK Gene

Start:
45,815,410 bp from pter
End:
45,863,290 bp from pter
Size:
47,881 bases
Orientation:
Minus strand

Genomic View for SYMPK Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SYMPK Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SYMPK Gene

Regulatory Elements for SYMPK Gene

Proteins for SYMPK Gene

  • Protein details for SYMPK Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q92797-SYMPK_HUMAN
    Recommended name:
    Symplekin
    Protein Accession:
    Q92797
    Secondary Accessions:
    • O00521
    • O00689
    • O00733
    • Q59GT5
    • Q8N2U5

    Protein attributes for SYMPK Gene

    Size:
    1274 amino acids
    Molecular mass:
    141148 Da
    Quaternary structure:
    • Found in a heat-sensitive complex at least composed of several cleavage and polyadenylation specific and cleavage stimulation factors. Interacts with CPSF2, CPSF3 and CSTF2. Interacts with HSF1 in heat-stressed cells. Interacts with SSU72.
    Miscellaneous:
    • Could be used as a differentiation marker in the differential diagnosis of tumors
    SequenceCaution:
    • Sequence=AAC50667.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAH30214.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305}; Sequence=BAD92261.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305}; Sequence=CAA71861.1; Type=Frameshift; Positions=67; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for SYMPK Gene

    Alternative splice isoforms for SYMPK Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SYMPK Gene

Proteomics data for SYMPK Gene at MOPED

Post-translational modifications for SYMPK Gene

  • Modification sites at PhosphoSitePlus
  • Ubiquitination at Lys520, Lys551, Lys909, Lys912, Lys919, and Lys1040

No data available for DME Specific Peptides for SYMPK Gene

Domains for SYMPK Gene

Protein Domains for SYMPK Gene

Suggested Antigen Peptide Sequences for SYMPK Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q92797

UniProtKB/Swiss-Prot:

SYMPK_HUMAN
Domain:
  • The HEAT repeats have been determined based on 3D-structure analysis of the D.melanogaster ortholog and are not detected by sequence-based prediction programs:
    • Q92797
Family:
  • Belongs to the Symplekin family.:
    • Q92797
Similarity:
  • Contains 5 HEAT repeats.:
    • Q92797
genes like me logo Genes that share domains with SYMPK: view

No data available for Gene Families for SYMPK Gene

Function for SYMPK Gene

Molecular function for SYMPK Gene

UniProtKB/Swiss-Prot Function: Scaffold protein that functions as a component of a multimolecular complex involved in histone mRNA 3-end processing. Specific component of the tight junction (TJ) plaque, but might not be an exclusively junctional component. May have a house-keeping rule. Is involved in pre-mRNA polyadenylation. Enhances SSU72 phosphatase activity.

Gene Ontology (GO) - Molecular Function for SYMPK Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005488 binding --
GO:0005515 protein binding IPI 18688255
genes like me logo Genes that share ontologies with SYMPK: view

Phenotypes for SYMPK Gene

MGI mutant phenotypes for SYMPK:
inferred from 1 alleles
GenomeRNAi human phenotypes for SYMPK:
genes like me logo Genes that share phenotypes with SYMPK: view

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for SYMPK Gene

Localization for SYMPK Gene

Subcellular locations from UniProtKB/Swiss-Prot for SYMPK Gene

Cytoplasm, cytoskeleton. Cell junction, tight junction. Cell membrane; Peripheral membrane protein; Cytoplasmic side. Cell junction. Nucleus, nucleoplasm. Note=Cytoplasmic face of adhesion plaques (major) and nucleoplasm (minor) (in cells with TJ). Nucleoplasm (in cells without TJ). Nuclear bodies of heat-stressed cells.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SYMPK Gene COMPARTMENTS Subcellular localization image for SYMPK gene
Compartment Confidence
cytoskeleton 5
nucleus 5
plasma membrane 5
cytosol 3

Gene Ontology (GO) - Cellular Components for SYMPK Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus --
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm IDA --
GO:0005856 cytoskeleton IEA --
GO:0005886 plasma membrane IDA --
genes like me logo Genes that share ontologies with SYMPK: view

Pathways for SYMPK Gene

genes like me logo Genes that share pathways with SYMPK: view

Pathways by source for SYMPK Gene

2 Cell Signaling Technology pathways for SYMPK Gene
2 KEGG pathways for SYMPK Gene

Gene Ontology (GO) - Biological Process for SYMPK Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006378 mRNA polyadenylation IMP 20861839
GO:0007155 cell adhesion IEA --
GO:0035307 positive regulation of protein dephosphorylation IDA 20861839
genes like me logo Genes that share ontologies with SYMPK: view

Compounds for SYMPK Gene

(1) Novoseek inferred chemical compound relationships for SYMPK Gene

Compound -log(P) Hits PubMed IDs
adenylate 24.1 1
genes like me logo Genes that share compounds with SYMPK: view

Transcripts for SYMPK Gene

Unigene Clusters for SYMPK Gene

Symplekin:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SYMPK Gene

ExUns: 1 ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5 ^ 6a · 6b · 6c ^ 7 ^ 8 ^ 9a · 9b ^ 10a · 10b ^ 11a · 11b ^ 12 ^ 13a · 13b ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^
SP1: - - - - -
SP2: - - - -
SP3:
SP4: -
SP5:
SP6:
SP7:
SP8: - -
SP9:
SP10:
SP11:
SP12:

ExUns: 19 ^ 20 ^ 21a · 21b ^ 22 ^ 23 ^ 24a · 24b ^ 25 ^ 26a · 26b · 26c ^ 27 ^ 28a · 28b
SP1: - -
SP2:
SP3: - - -
SP4:
SP5: - - -
SP6: - -
SP7:
SP8:
SP9: - -
SP10:
SP11:
SP12:

Relevant External Links for SYMPK Gene

GeneLoc Exon Structure for
SYMPK
ECgene alternative splicing isoforms for
SYMPK

Expression for SYMPK Gene

mRNA expression in normal human tissues for SYMPK Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for SYMPK Gene

SOURCE GeneReport for Unigene cluster for SYMPK Gene Hs.515475

mRNA Expression by UniProt/SwissProt for SYMPK Gene

Q92797-SYMPK_HUMAN
Tissue specificity: In testis, expressed in polar epithelia and Sertoli cells but not in vascular endothelia. The protein is detected in stomach, duodenum, pancreas, liver, fetal brain, carcinomas, lens-forming cells, fibroblasts, lymphocytes, lymphoma cells, erythroleukemia cells but not in endothelium of vessels, epidermis, intercalated disks, Purkinje fiber cells of the heart and lymph node.
genes like me logo Genes that share expressions with SYMPK: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for SYMPK Gene

Orthologs for SYMPK Gene

This gene was present in the common ancestor of animals.

Orthologs for SYMPK Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SYMPK 35
  • 99.58 (n)
  • 99.84 (a)
SYMPK 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SYMPK 35
  • 90.67 (n)
  • 96.38 (a)
SYMPK 36
  • 97 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SYMPK 35
  • 91.17 (n)
  • 97.72 (a)
SYMPK 36
  • 97 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Sympk 35
  • 87.99 (n)
  • 94.02 (a)
Sympk 16
Sympk 36
  • 94 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SYMPK 36
  • 87 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SYMPK 36
  • 82 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Sympk 35
  • 86.93 (n)
  • 92.36 (a)
lizard
(Anolis carolinensis)
Reptilia SYMPK 36
  • 78 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia MGC53503 35
tropical clawed frog
(Silurana tropicalis)
Amphibia MGC75595 35
sympk 35
  • 67.94 (n)
  • 74.49 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.988 35
zebrafish
(Danio rerio)
Actinopterygii Dr.4673 35
si:dkeyp-117b8.1 35
  • 71.93 (n)
  • 74.84 (a)
SYMPK 36
  • 68 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP002618 35
  • 53.05 (n)
  • 40.66 (a)
fruit fly
(Drosophila melanogaster)
Insecta Sym 35
  • 47.39 (n)
  • 38.09 (a)
Sym 36
  • 36 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea symk-1 35
  • 41.53 (n)
  • 31.52 (a)
symk-1 36
  • 27 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea CSA.6518 36
  • 48 (a)
OneToOne
Species with no ortholog for SYMPK:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SYMPK Gene

ENSEMBL:
Gene Tree for SYMPK (if available)
TreeFam:
Gene Tree for SYMPK (if available)

Paralogs for SYMPK Gene

Selected SIMAP similar genes for SYMPK Gene using alignment to 8 proteins:

genes like me logo Genes that share paralogs with SYMPK: view

No data available for Paralogs for SYMPK Gene

Variants for SYMPK Gene

Sequence variations from dbSNP and Humsavar for SYMPK Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type MAF
rs918487 -- 45,838,193(-) GAGCA(A/G)GAGAA intron-variant
rs918488 -- 45,838,115(-) TCCTG(A/T)AGACA intron-variant
rs918489 -- 45,835,516(-) TTATG(C/T)TGACT intron-variant
rs918490 -- 45,835,471(-) CTTGC(A/G)CAGGG intron-variant
rs918491 -- 45,834,880(-) TTTGA(A/G)GTTTG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SYMPK Gene

Variant ID Type Subtype PubMed ID
dgv3954n71 CNV Loss 21882294
nsv912166 CNV Loss 21882294
dgv3956n71 CNV Loss 21882294
nsv912172 CNV Loss 21882294
esv25340 CNV Gain 19812545
nsv510770 CNV Loss 20534489

Relevant External Links for SYMPK Gene

HapMap Linkage Disequilibrium report
SYMPK

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SYMPK Gene

Disorders for SYMPK Gene

Relevant External Links for SYMPK

Genetic Association Database (GAD)
SYMPK
Human Genome Epidemiology (HuGE) Navigator
SYMPK
genes like me logo Genes that share disorders with SYMPK: view

No data available for UniProtKB/Swiss-Prot for SYMPK Gene

Publications for SYMPK Gene

  1. Symplekin, a novel type of tight junction plaque protein. (PMID: 8769423) Keon B.H. … Franke W.W. (J. Cell Biol. 1996) 3 4 23
  2. Complex protein interactions within the human polyadenylation machinery identify a novel component. (PMID: 10669729) Takagaki Y. … Manley J.L. (Mol. Cell. Biol. 2000) 3 4 23
  3. HSF1 modulation of Hsp70 mRNA polyadenylation via interaction with symplekin. (PMID: 14707147) Xing H. … Sarge K.D. (J. Biol. Chem. 2004) 3 4 23
  4. Symplekin and multiple other polyadenylation factors participate in 3'-end maturation of histone mRNAs. (PMID: 16230528) Kolev N.G. … Steitz J.A. (Genes Dev. 2005) 3 4 23
  5. Chromosomal localization to 19q13.3, partial genomic structure and 5' cDNA sequence of the human symplekin gene. (PMID: 9330635) Ueki K. … Louis D.N. (Somat. Cell Mol. Genet. 1997) 2 3 4

Products for SYMPK Gene

Sources for SYMPK Gene

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