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Aliases for SYNE2 Gene

Aliases for SYNE2 Gene

  • Spectrin Repeat Containing Nuclear Envelope Protein 2 2 3 5
  • Spectrin Repeat Containing, Nuclear Envelope 2 2 3
  • Nucleus And Actin Connecting Element Protein 3 4
  • Nuclear Envelope Spectrin Repeat Protein 2 3 4
  • Synaptic Nuclear Envelope Protein 2 3 4
  • SYNE-2 3 4
  • NUA 3 4
  • Nucleus And Actin Connecting Element 2
  • Nuclear Envelope Spectrin Repeat-2 2
  • Synaptic Nuclei Expressed Gene 2 3
  • Protein NUANCE 4
  • Polytrophin 3
  • Nesprin 2 3
  • Nesprin-2 3
  • KIAA1011 4
  • NUANCE 3
  • EDMD5 3
  • Nesp2 3
  • TROPH 3

External Ids for SYNE2 Gene

Previous GeneCards Identifiers for SYNE2 Gene

  • GC14P058113
  • GC14P062309
  • GC14P063389
  • GC14P064319
  • GC14P044548

Summaries for SYNE2 Gene

Entrez Gene Summary for SYNE2 Gene

  • The protein encoded by this gene is a nuclear outer membrane protein that binds cytoplasmic F-actin. This binding tethers the nucleus to the cytoskeleton and aids in the maintenance of the structural integrity of the nucleus. Several transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Mar 2009]

GeneCards Summary for SYNE2 Gene

SYNE2 (Spectrin Repeat Containing Nuclear Envelope Protein 2) is a Protein Coding gene. Diseases associated with SYNE2 include Emery-Dreifuss Muscular Dystrophy 5, Autosomal Dominant and Emery-Dreifuss Muscular Dystrophy 2, Ad. Among its related pathways are Meiosis and Ovarian Infertility Genes. GO annotations related to this gene include actin binding and actin filament binding. An important paralog of this gene is SYNE1.

UniProtKB/Swiss-Prot for SYNE2 Gene

  • Multi-isomeric modular protein which forms a linking network between organelles and the actin cytoskeleton to maintain the subcellular spatial organization. Component of SUN-protein-containing multivariate complexes also called LINC complexes which link the nucleoskeleton and cytoskeleton by providing versatile outer nuclear membrane attachment sites for cytoskeletal filaments. Involved in the maintenance of nuclear organization and structural integrity. Connects nuclei to the cytoskeleton by interacting with the nuclear envelope and with F-actin in the cytoplasm. Specifically, SYNE2 and SUN2 assemble in arrays of transmembrane actin-associated nuclear (TAN) lines which are bound to F-actin cables and couple the nucleus to retrograde actin flow during actin-dependent nuclear movement. Required for centrosome migration to the apical cell surface during early ciliogenesis.

Gene Wiki entry for SYNE2 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SYNE2 Gene

Genomics for SYNE2 Gene

Regulatory Elements for SYNE2 Gene

Enhancers for SYNE2 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH14F063852 1.3 FANTOM5 ENCODE 23.2 +3.0 3000 6.5 SIN3A ZNF2 SMARCB1 MAFF ZNF610 WT1 SP7 CTCF ZNF146 ZNF140 SYNE2 WDR89 ZBTB25 ENSG00000214770 ZBTB1 PPP2R5E GC14P064073
GH14F063921 1.2 Ensembl ENCODE 18 +70.5 70499 2.3 SIN3A DMAP1 ZNF2 YY1 FOS ZNF263 NFIL3 ZSCAN16 ZNF610 GLIS1 SYNE2 ENSG00000202182 MIR548H1 GC14P064073
GH14F063873 0.9 Ensembl ENCODE 21.3 +22.2 22221 2.4 ZNF121 CBX3 PKNOX1 ATF1 CBX5 ZNF341 KLF4 TRIM28 SYNE2 ENSG00000202182 GC14P064073
GH14F063890 1 Ensembl ENCODE 17.2 +39.8 39829 4.4 PKNOX1 ZNF223 MAX KLF17 ZNF121 ZNF324 ZNF316 ZFHX2 ZNF366 PRDM10 SYNE2 ENSG00000202182 GC14P064073
GH14F063937 0.9 Ensembl ENCODE 18.9 +85.8 85837 1.8 HDGF PKNOX1 EBF1 YY1 ATF3 TARDBP EED IKZF1 HNF4G NBN SYNE2 ENSG00000202182 MIR548H1 GC14P064073
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SYNE2 on UCSC Golden Path with GeneCards custom track

Promoters for SYNE2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001458028 1115 3000 TBP SIN3A ZNF2 RAD21 ZBTB40 ZNF362 CEBPB ZEB2 SMARCB1 SP1

Genomic Location for SYNE2 Gene

Chromosome:
14
Start:
63,852,586 bp from pter
End:
64,226,449 bp from pter
Size:
373,864 bases
Orientation:
Plus strand

Genomic View for SYNE2 Gene

Genes around SYNE2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SYNE2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SYNE2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SYNE2 Gene

Proteins for SYNE2 Gene

  • Protein details for SYNE2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8WXH0-SYNE2_HUMAN
    Recommended name:
    Nesprin-2
    Protein Accession:
    Q8WXH0
    Secondary Accessions:
    • B4DND7
    • B4DPR6
    • I6XXQ5
    • Q540G1
    • Q86YP9
    • Q8N1S3
    • Q8NF49
    • Q8TER7
    • Q8WWW3
    • Q8WWW4
    • Q8WWW5
    • Q8WXH1
    • Q9NU50
    • Q9UFQ4
    • Q9Y2L4
    • Q9Y4R1

    Protein attributes for SYNE2 Gene

    Size:
    6885 amino acids
    Molecular mass:
    796442 Da
    Quaternary structure:
    • Core component of the LINC complex which is composed of inner nuclear membrane SUN domain-containing proteins coupled to outer nuclear membrane KASH domain-containing nesprins. SUN domain-containing proteins interact with A-type lamins of the nuclear lamina, while at the other end of the complex, nesprins interact with unique cytoskeletal components. Interacts with F-actin via its N-terminal domain. Interacts with EMD, LMNA and MKS3. Interacts with TMEM67 (By similarity).
    SequenceCaution:
    • Sequence=BAB84881.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305}; Sequence=CAB45729.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=CAB55905.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for SYNE2 Gene

    Alternative splice isoforms for SYNE2 Gene

neXtProt entry for SYNE2 Gene

Post-translational modifications for SYNE2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Antibody Products

  • Cloud-Clone Corp. Antibodies for SYNE2

No data available for DME Specific Peptides for SYNE2 Gene

Domains & Families for SYNE2 Gene

Suggested Antigen Peptide Sequences for SYNE2 Gene

Graphical View of Domain Structure for InterPro Entry

Q8WXH0

UniProtKB/Swiss-Prot:

SYNE2_HUMAN :
  • The KASH domain mediates the nuclear envelope targeting.
  • Belongs to the nesprin family.
  • Contains 56 spectrin repeats.
Domain:
  • The KASH domain mediates the nuclear envelope targeting.
  • Contains 1 actin-binding domain.
  • Contains 2 CH (calponin-homology) domains.
  • Contains 1 KASH domain.
Family:
  • Belongs to the nesprin family.
Similarity:
  • Contains 56 spectrin repeats.
genes like me logo Genes that share domains with SYNE2: view

Function for SYNE2 Gene

Molecular function for SYNE2 Gene

UniProtKB/Swiss-Prot Function:
Multi-isomeric modular protein which forms a linking network between organelles and the actin cytoskeleton to maintain the subcellular spatial organization. Component of SUN-protein-containing multivariate complexes also called LINC complexes which link the nucleoskeleton and cytoskeleton by providing versatile outer nuclear membrane attachment sites for cytoskeletal filaments. Involved in the maintenance of nuclear organization and structural integrity. Connects nuclei to the cytoskeleton by interacting with the nuclear envelope and with F-actin in the cytoplasm. Specifically, SYNE2 and SUN2 assemble in arrays of transmembrane actin-associated nuclear (TAN) lines which are bound to F-actin cables and couple the nucleus to retrograde actin flow during actin-dependent nuclear movement. Required for centrosome migration to the apical cell surface during early ciliogenesis.

Gene Ontology (GO) - Molecular Function for SYNE2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003779 actin binding ISS --
GO:0005515 protein binding IPI 15671068
GO:0051015 actin filament binding IEA --
genes like me logo Genes that share ontologies with SYNE2: view
genes like me logo Genes that share phenotypes with SYNE2: view

Human Phenotype Ontology for SYNE2 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for SYNE2 Gene

MGI Knock Outs for SYNE2:

Animal Model Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targets and HOMER Transcription for SYNE2 Gene

Localization for SYNE2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SYNE2 Gene

Nucleus outer membrane; Single-pass type IV membrane protein; Cytoplasmic side. Sarcoplasmic reticulum membrane; Single-pass type IV membrane protein. Cell membrane; Single-pass membrane protein. Cytoplasm, cytoskeleton. Mitochondrion. Nucleus, nucleoplasm. Cytoplasm, myofibril, sarcomere, Z line. Note=Different isoform patterns are found in the different compartments of the cell. The isoforms having the C-terminal transmembrane span can be found in several organellar membranes like the nuclear envelope, the sarcoplasmic reticulum of myoblasts, or the lamellipodia and focal adhesions at the cell membrane. The largest part of the outer nuclear membrane-associated protein is cytoplasmic, while its C-terminal part is associated with the nuclear envelope, most probably the outer nuclear membrane. Remains associated with the nuclear envelope during its breakdown in mitotic cells. Shorter solubles isoforms can be found in the cytoplasm and within the nucleus.
Isoform 8: Cell junction, focal adhesion. Note=In U2OS cells. {ECO:0000269 PubMed:22768332}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SYNE2 gene
Compartment Confidence
plasma membrane 5
extracellular 5
cytoskeleton 5
mitochondrion 5
nucleus 5
endoplasmic reticulum 5
cytosol 3
peroxisome 1

Gene Ontology (GO) - Cellular Components for SYNE2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 12118075
GO:0005635 nuclear envelope IEA,IDA 15671068
GO:0005640 nuclear outer membrane IEA --
GO:0005654 nucleoplasm IEA --
GO:0005737 cytoplasm IEA,IDA 12118075
genes like me logo Genes that share ontologies with SYNE2: view

Pathways & Interactions for SYNE2 Gene

genes like me logo Genes that share pathways with SYNE2: view

Pathways by source for SYNE2 Gene

1 BioSystems pathway for SYNE2 Gene
3 Reactome pathways for SYNE2 Gene

Gene Ontology (GO) - Biological Process for SYNE2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006998 nuclear envelope organization IEA --
GO:0007097 nuclear migration IMP 20724637
GO:0007163 establishment or maintenance of cell polarity IEA --
GO:0010761 fibroblast migration IEA --
GO:0021817 nucleokinesis involved in cell motility in cerebral cortex radial glia guided migration IEA --
genes like me logo Genes that share ontologies with SYNE2: view

No data available for SIGNOR curated interactions for SYNE2 Gene

Transcripts for SYNE2 Gene

Unigene Clusters for SYNE2 Gene

Spectrin repeat containing, nuclear envelope 2:
Representative Sequences:

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SYNE2 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21 ^ 22 ^ 23a · 23b ^ 24 ^
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:

ExUns: 25 ^ 26 ^ 27 ^ 28 ^ 29 ^ 30a · 30b ^ 31 ^ 32 ^ 33 ^ 34 ^ 35 ^ 36
SP1:
SP2:
SP3:
SP4:
SP5: -
SP6:

Relevant External Links for SYNE2 Gene

GeneLoc Exon Structure for
SYNE2
ECgene alternative splicing isoforms for
SYNE2

Expression for SYNE2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SYNE2 Gene

Protein differential expression in normal tissues from HIPED for SYNE2 Gene

This gene is overexpressed in Bone marrow mesenchymal stem cell (18.2), Peripheral blood mononuclear cells (8.3), and Testis (7.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SYNE2 Gene



Protein tissue co-expression partners for SYNE2 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SYNE2 Gene:

SYNE2

SOURCE GeneReport for Unigene cluster for SYNE2 Gene:

Hs.745014

mRNA Expression by UniProt/SwissProt for SYNE2 Gene:

Q8WXH0-SYNE2_HUMAN
Tissue specificity: Widely expressed, with higher level in kidney, adult and fetal liver, stomach and placenta. Weakly expressed in skeletal muscle and brain. Isoform 5 is highly expressed in pancreas, skeletal muscle and heart.
genes like me logo Genes that share expression patterns with SYNE2: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for SYNE2 Gene

Orthologs for SYNE2 Gene

This gene was present in the common ancestor of animals.

Orthologs for SYNE2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SYNE2 34 35
  • 99.36 (n)
dog
(Canis familiaris)
Mammalia SYNE2 34 35
  • 86.68 (n)
cow
(Bos Taurus)
Mammalia SYNE2 34 35
  • 86.31 (n)
mouse
(Mus musculus)
Mammalia Syne2 34 16 35
  • 77.69 (n)
rat
(Rattus norvegicus)
Mammalia Syne2 34
  • 77.23 (n)
oppossum
(Monodelphis domestica)
Mammalia SYNE2 35
  • 57 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SYNE2 35
  • 51 (a)
OneToOne
chicken
(Gallus gallus)
Aves SYNE2 34 35
  • 62.9 (n)
lizard
(Anolis carolinensis)
Reptilia SYNE2 35
  • 45 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia syne2 34
  • 53.98 (n)
zebrafish
(Danio rerio)
Actinopterygii syne2b 34 35
  • 49.68 (n)
syne2a 35
  • 21 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta Msp-300 35
  • 8 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea anc-1 35
  • 14 (a)
OneToMany
Species where no ortholog for SYNE2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • 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)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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 SYNE2 Gene

ENSEMBL:
Gene Tree for SYNE2 (if available)
TreeFam:
Gene Tree for SYNE2 (if available)

Paralogs for SYNE2 Gene

Variants for SYNE2 Gene

Sequence variations from dbSNP and Humsavar for SYNE2 Gene

SNP ID Clin Chr 14 pos Sequence Context AA Info Type
rs36215895 Emery-Dreifuss muscular dystrophy 5, autosomal dominant (EDMD5) [MIM:612999], Pathogenic 64,210,033(+) AGACA(C/G/T)GGCCA reference, missense
VAR_036255 A breast cancer sample
VAR_036256 A breast cancer sample
rs786205488 Likely pathogenic 64,007,107(+) ATTTA(C/T)AAGAA nc-transcript-variant, reference, stop-gained
rs11158524 Likely benign 64,007,181(+) AATAC(A/G)GTAGT nc-transcript-variant, reference, synonymous-codon

Structural Variations from Database of Genomic Variants (DGV) for SYNE2 Gene

Variant ID Type Subtype PubMed ID
esv3634748 CNV loss 21293372
nsv1038825 CNV gain 25217958
nsv1050378 CNV gain 25217958
nsv1131071 CNV deletion 24896259
nsv1143404 CNV deletion 24896259
nsv1143610 CNV deletion 24896259
nsv1306 CNV insertion 18451855
nsv456326 CNV gain 19166990
nsv507758 OTHER sequence alteration 20534489
nsv564904 CNV loss 21841781
nsv564905 CNV gain 21841781
nsv564906 CNV loss 21841781
nsv826965 CNV loss 20364138
esv3634746 CNV loss 21293372
esv3634743 CNV loss 21293372
esv3634742 CNV loss 21293372
esv3634741 CNV loss 21293372
esv3634740 CNV loss 21293372
esv3581225 CNV loss 25503493
esv3581224 CNV loss 25503493
esv3581223 CNV loss 25503493
esv3581222 CNV loss 25503493
esv3417928 CNV insertion 20981092
esv3304914 CNV mobile element insertion 20981092
esv2748779 CNV deletion 23290073
esv2667533 CNV deletion 23128226
esv2661706 CNV deletion 23128226
esv1069906 CNV deletion 17803354

Variation tolerance for SYNE2 Gene

Residual Variation Intolerance Score: 98.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 22.66; 99.46% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SYNE2 Gene

Human Gene Mutation Database (HGMD)
SYNE2
SNPedia medical, phenotypic, and genealogical associations of SNPs for
SYNE2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SYNE2 Gene

Disorders for SYNE2 Gene

MalaCards: The human disease database

(6) MalaCards diseases for SYNE2 Gene - From: OMIM, GeneTests, Orphanet, Swiss-Prot, DISEASES, and GeneCards

- elite association - COSMIC cancer census association via MalaCards
Search SYNE2 in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

SYNE2_HUMAN
  • Emery-Dreifuss muscular dystrophy 5, autosomal dominant (EDMD5) [MIM:612999]: A form of Emery-Dreifuss muscular dystrophy, a degenerative myopathy characterized by weakness and atrophy of muscle without involvement of the nervous system, early contractures of the elbows, Achilles tendons and spine, and cardiomyopathy associated with cardiac conduction defects. {ECO:0000269 PubMed:17761684}. Note=The disease is caused by mutations affecting the gene represented in this entry.

Relevant External Links for SYNE2

Genetic Association Database (GAD)
SYNE2
Human Genome Epidemiology (HuGE) Navigator
SYNE2
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SYNE2
genes like me logo Genes that share disorders with SYNE2: view

No data available for Genatlas for SYNE2 Gene

Publications for SYNE2 Gene

  1. Nesprin-1 and -2 are involved in the pathogenesis of Emery Dreifuss muscular dystrophy and are critical for nuclear envelope integrity. (PMID: 17761684) Zhang Q. … Shanahan C.M. (Hum. Mol. Genet. 2007) 3 4 22 64
  2. Nesprin-2 is a multi-isomeric protein that binds lamin and emerin at the nuclear envelope and forms a subcellular network in skeletal muscle. (PMID: 15671068) Zhang Q. … Shanahan C.M. (J. Cell Sci. 2005) 3 4 22 64
  3. The nesprins are giant actin-binding proteins, orthologous to Drosophila melanogaster muscle protein MSP-300. (PMID: 12408964) Zhang Q. … Roberts R.G. (Genomics 2002) 3 4 22 64
  4. Prediction of the coding sequences of unidentified human genes. XIII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10231032) Nagase T. … Ohara O. (DNA Res. 1999) 2 3 4 64
  5. Nesprins: tissue-specific expression of epsilon and other short isoforms. (PMID: 24718612) Duong N.T. … Holt I. (PLoS ONE 2014) 3 4 64

Products for SYNE2 Gene

Sources for SYNE2 Gene

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