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Aliases for PRPH Gene

Aliases for PRPH Gene

  • Peripherin 2 3 3 5
  • PRPH1 3 4
  • NEF4 3 4
  • Neurofilament 4 (57kD) 3
  • Neurofilament 4 4

External Ids for PRPH Gene

Previous HGNC Symbols for PRPH Gene

  • NEF4

Previous GeneCards Identifiers for PRPH Gene

  • GC12M049560
  • GC12P049720
  • GC12P049405
  • GC12P047975
  • GC12P047973
  • GC12P049687
  • GC12P046719

Summaries for PRPH Gene

Entrez Gene Summary for PRPH Gene

  • This gene encodes a cytoskeletal protein found in neurons of the peripheral nervous system. The encoded protein is a type III intermediate filament protein with homology to other cytoskeletal proteins such as desmin, and is a different protein that the peripherin found in photoreceptors. Mutations in this gene have been associated with susceptibility to amyotrophic lateral sclerosis. [provided by RefSeq, Jul 2008]

GeneCards Summary for PRPH Gene

PRPH (Peripherin) is a Protein Coding gene. Diseases associated with PRPH include Amyotrophic Lateral Sclerosis 1 and Lateral Sclerosis. Among its related pathways are Amyotrophic lateral sclerosis (ALS) and Cytoskeleton remodeling Neurofilaments. Gene Ontology (GO) annotations related to this gene include structural molecule activity. An important paralog of this gene is DES.

UniProtKB/Swiss-Prot for PRPH Gene

  • Class-III neuronal intermediate filament protein.

Gene Wiki entry for PRPH Gene

Additional gene information for PRPH Gene

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

Genomics for PRPH Gene

GeneHancer (GH) Regulatory Elements for PRPH Gene

Promoters and enhancers for PRPH Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH12I049293 Promoter/Enhancer 1.3 EPDnew ENCODE 550.8 +1.5 1467 1.4 CTCF KLF1 ZSCAN4 KLF17 FEZF1 ZNF2 ZNF48 ZNF121 GLIS2 POLR2A PRPH KMT2D DDX23 KANSL2 CCNT1 SMARCD1 LMBR1L BCDIN3D LOC390314 LOC101927267
GH12I049292 Promoter/Enhancer 1.2 EPDnew ENCODE 557.2 +0.1 106 1.1 HDGF KLF1 ZSCAN4 KLF17 ZIC2 ZNF2 ZNF335 ZFHX2 GLIS2 PATZ1 PRPH GC12M049291 GC12P049321 LOC101927267
GH12I049263 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 22.6 -26.7 -26723 6.6 CLOCK DMAP1 YY1 ZNF213 ZNF143 ZNF263 SP3 NFYC ZFP41 MEF2D TUBA1C ENSG00000258101 DDX23 KMT2D CCNT1 LMBR1L LOC390314 KANSL2 SMARCD1 BCDIN3D
GH12I050246 Promoter/Enhancer 2 EPDnew Ensembl ENCODE dbSUPER 19.4 +958.2 958198 10.5 HDGF PKNOX1 SMAD1 FOXA2 ARNT NEUROD1 FEZF1 ZNF2 IRF4 ZNF143 LIMA1 ENSG00000257298 PRPF40B PRPH LOC100422296 SMARCD1 CERS5 SPATS2 SLC11A2 ENSG00000257964
GH12I048956 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 12.2 -336.4 -336434 3 HDGF PKNOX1 CLOCK SMAD1 ARID4B NEUROD1 SIN3A FEZF1 ZNF2 YY1 ARF3 ENSG00000272822 CCNT1 KANSL2 LMBR1L LOC390314 DDX23 KMT2D SENP1 PRPF40B
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around PRPH on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the PRPH gene promoter:

Genomic Locations for PRPH Gene

Genomic Locations for PRPH Gene
chr12:49,293,252-49,298,698
(GRCh38/hg38)
Size:
5,447 bases
Orientation:
Plus strand
chr12:49,687,035-49,692,481
(GRCh37/hg19)

Genomic View for PRPH Gene

Genes around PRPH on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for PRPH Gene

Proteins for PRPH Gene

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

    Protein Symbol:
    P41219-PERI_HUMAN
    Recommended name:
    Peripherin
    Protein Accession:
    P41219
    Secondary Accessions:
    • Q8N577

    Protein attributes for PRPH Gene

    Size:
    470 amino acids
    Molecular mass:
    53651 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for PRPH Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PRPH Gene

Post-translational modifications for PRPH Gene

No Post-translational modifications

Other Protein References for PRPH Gene

No data available for DME Specific Peptides for PRPH Gene

Domains & Families for PRPH Gene

Gene Families for PRPH Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for PRPH Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P41219

UniProtKB/Swiss-Prot:

PERI_HUMAN :
  • Belongs to the intermediate filament family.
Family:
  • Belongs to the intermediate filament family.
genes like me logo Genes that share domains with PRPH: view

Function for PRPH Gene

Molecular function for PRPH Gene

GENATLAS Biochemistry:
peripherin,neuronal,intermediate filament associated protein (IFAP,type III)
UniProtKB/Swiss-Prot Function:
Class-III neuronal intermediate filament protein.

Phenotypes From GWAS Catalog for PRPH Gene

Gene Ontology (GO) - Molecular Function for PRPH Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005198 structural molecule activity IEA --
GO:0005515 protein binding IPI 21900206
genes like me logo Genes that share ontologies with PRPH: view
genes like me logo Genes that share phenotypes with PRPH: view

Human Phenotype Ontology for PRPH Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for PRPH Gene

MGI Knock Outs for PRPH:

Animal Model Products

miRNA for PRPH Gene

miRTarBase miRNAs that target PRPH

Clone Products

  • Addgene plasmids for PRPH

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

Localization for PRPH Gene

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 PRPH gene
Compartment Confidence
extracellular 5
cytoskeleton 4
nucleus 2
cytosol 2
mitochondrion 1

Gene Ontology (GO) - Cellular Components for PRPH Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005882 intermediate filament TAS,IEA 1378416
GO:0016020 membrane HDA,IDA 19946888
GO:0045098 type III intermediate filament IEA --
GO:0070062 extracellular exosome HDA,IDA 23533145
genes like me logo Genes that share ontologies with PRPH: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Subcellular locations from the Human Protein Atlas (HPA) for PRPH Gene

Pathways & Interactions for PRPH Gene

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

Pathways by source for PRPH Gene

1 BioSystems pathway for PRPH Gene
1 KEGG pathway for PRPH Gene
1 GeneGo (Thomson Reuters) pathway for PRPH Gene

Gene Ontology (GO) - Biological Process for PRPH Gene

None

No data available for SIGNOR curated interactions for PRPH Gene

Drugs & Compounds for PRPH Gene

No Compound Related Data Available

Transcripts for PRPH Gene

Unigene Clusters for PRPH Gene

Peripherin:
Representative Sequences:

Clone Products

  • Addgene plasmids for PRPH

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

ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6 ^ 7a · 7b · 7c ^ 8 ^ 9 ^ 10
SP1: - -
SP2: - -
SP3: -
SP4:

Relevant External Links for PRPH Gene

GeneLoc Exon Structure for
PRPH
ECgene alternative splicing isoforms for
PRPH

Expression for PRPH Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for PRPH Gene

This gene is overexpressed in Testis (x8.9) and Colon - Sigmoid (x8.0).

Protein differential expression in normal tissues from HIPED for PRPH Gene

This gene is overexpressed in Spinal cord (33.6) and Colon muscle (7.1).

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



NURSA nuclear receptor signaling pathways regulating expression of PRPH Gene:

PRPH

SOURCE GeneReport for Unigene cluster for PRPH Gene:

Hs.37044

Evidence on tissue expression from TISSUES for PRPH Gene

  • Nervous system(4.3)
  • Liver(4.2)

Phenotype-based relationships between genes and organs from Gene ORGANizer for PRPH Gene

Germ Layers:
  • ectoderm
  • endoderm
  • mesoderm
Systems:
  • cardiovascular
  • digestive
  • nervous
  • respiratory
  • skeletal muscle
  • skeleton
Regions:
Head and neck:
  • brain
  • cerebellum
  • cranial nerve
  • ear
  • epiglottis
  • face
  • head
  • jaw
  • larynx
  • mandible
  • maxilla
  • mouth
  • neck
  • nose
  • pharynx
  • skull
  • tongue
  • vocal cord
Thorax:
  • bronchus
  • clavicle
  • esophagus
  • heart
  • lung
  • scapula
  • trachea
Abdomen:
  • biliary tract
  • liver
  • stomach
Limb:
  • arm
  • digit
  • finger
  • foot
  • forearm
  • hand
  • humerus
  • lower limb
  • shin
  • shoulder
  • thigh
  • toe
  • upper limb
General:
  • blood vessel
  • peripheral nerve
  • peripheral nervous system
  • spinal cord
genes like me logo Genes that share expression patterns with PRPH: view

No data available for Protein tissue co-expression partners and mRNA Expression by UniProt/SwissProt for PRPH Gene

Orthologs for PRPH Gene

This gene was present in the common ancestor of chordates.

Orthologs for PRPH Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PRPH 33 34
  • 99.93 (n)
dog
(Canis familiaris)
Mammalia PRPH 33 34
  • 93.43 (n)
cow
(Bos Taurus)
Mammalia PRPH 34 33
  • 92.57 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia PRPH 34
  • 91 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia PRPH 34
  • 91 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Prph 33
  • 90.72 (n)
mouse
(Mus musculus)
Mammalia Prph 33 16 34
  • 89.61 (n)
chicken
(Gallus gallus)
Aves -- 34
  • 48 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia PRPH 34
  • 80 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia prph 33
  • 67.33 (n)
African clawed frog
(Xenopus laevis)
Amphibia plasticin-prov 33
zebrafish
(Danio rerio)
Actinopterygii prph 33 34
  • 67.15 (n)
plasticin 33
Species where no ortholog for PRPH was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for PRPH Gene

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

Paralogs for PRPH Gene

Variants for PRPH Gene

Sequence variations from dbSNP and Humsavar for PRPH Gene

SNP ID Clin Chr 12 pos Variation AA Info Type
rs58599399 risk-factor, not-provided, uncertain-significance, Amyotrophic lateral sclerosis, susceptibility to, not provided, not specified 49,295,621(+) G/A/T coding_sequence_variant, missense_variant, non_coding_transcript_variant
rs73112142 uncertain-significance, not provided 49,297,274(+) G/A splice_donor_variant
rs112146976 not-provided, not provided 49,297,620(+) C/A intron_variant
rs200141011 not-provided, not provided 49,297,604(+) C/A intron_variant
rs2070760 not-provided, not provided 49,296,554(+) T/C intron_variant

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

Variant ID Type Subtype PubMed ID
nsv826367 CNV gain 20364138
nsv558834 CNV gain 21841781
esv3581571 CNV gain 25503493
esv25113 CNV gain 19812545
dgv274e214 CNV gain 21293372
dgv1497n100 CNV gain 25217958

Variation tolerance for PRPH Gene

Residual Variation Intolerance Score: 15.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.81; 58.43% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PRPH Gene

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

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

Disorders for PRPH Gene

MalaCards: The human disease database

(2) MalaCards diseases for PRPH Gene - From: OMIM, GTR, Orphanet, and GeneCards

Disorder Aliases PubMed IDs
amyotrophic lateral sclerosis 1
  • als1
lateral sclerosis
  • motor neuron disease
- elite association - COSMIC cancer census association via MalaCards
Search PRPH in MalaCards View complete list of genes associated with diseases

Additional Disease Information for PRPH

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

No data available for UniProtKB/Swiss-Prot and Genatlas for PRPH Gene

Publications for PRPH Gene

  1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  2. A frameshift deletion in peripherin gene associated with amyotrophic lateral sclerosis. (PMID: 15322088) Gros-Louis F … Julien JP (The Journal of biological chemistry 2004) 3 44 58
  3. Charcot-Marie-Tooth disease and related neuropathies: mutation distribution and genotype-phenotype correlation. (PMID: 11835375) Boerkoel CF … Lupski JR (Annals of neurology 2002) 3 44 58
  4. The structure of the human peripherin gene (PRPH) and identification of potential regulatory elements. (PMID: 7806235) Foley J … Parysek LM (Genomics 1994) 3 4 58
  5. Chromosomal localisation of the mouse and human peripherin genes. (PMID: 1378416) Moncla A … Portier MM (Genetical research 1992) 2 3 58

Products for PRPH Gene

Sources for PRPH Gene

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