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Aliases for PCDHB17P Gene

Subcategory (RNA class) for PCDHB17P Gene

lncRNA

Aliases for PCDHB17P Gene

  • Protocadherin Beta 17 Pseudogene 2 3 5
  • PCDH-Psi1 3
  • PCDHB17 3
  • ME4 3

External Ids for PCDHB17P Gene

ORGUL Members for PCDHB17P Gene

Previous HGNC Symbols for PCDHB17P Gene

  • PCDHB17

Previous GeneCards Identifiers for PCDHB17P Gene

  • GC05P141439
  • GC05P141574
  • GC05P141676
  • GC05P141778
  • GC05P141878
  • GC05P141986
  • GC05P142087

Summaries for PCDHB17P Gene

GeneCards Summary for PCDHB17P Gene

PCDHB17P (Protocadherin Beta 17 Pseudogene) is a Pseudogene, and is affiliated with the lncRNA class.

Additional gene information for PCDHB17P Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PCDHB17P Gene

Genomics for PCDHB17P Gene

GeneHancer (GH) Regulatory Elements for PCDHB17P Gene

Promoters and enhancers for PCDHB17P 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
GH05I141319 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 24.1 +164.7 164654 1.9 PKNOX1 SMAD1 ARNT ARID4B SIN3A ZNF2 YY1 SLC30A9 POLR2B ZNF213 TAF7 PCDHB15 ANKHD1 ENSG00000272108 WDR55 PCDHB9 LOC102723915 FCHSD1 PCDHB18P PCDHB6
GH05I140291 Enhancer 1.4 Ensembl ENCODE dbSUPER 24 -860.4 -860367 7.9 PKNOX1 SMAD1 FEZF1 ZNF2 NCOA2 ZNF213 KLF7 FOS ATF7 ZNF214 PCDHB18P PURA ENSG00000272108 PCDHB19P PCDHB9 PCDHB6 PCDHB5 PCDHB10 PCDHB17P PCDHB15
GH05I140717 Promoter/Enhancer 1.6 Ensembl ENCODE 20.8 -436.9 -436860 2.7 MLX IRF4 ZNF213 E2F8 ZNF416 ZNF143 SP3 PPARGC1A MEF2D GLIS1 GC05P142207 VTRNA1-2 PURA PCDHB18P PCDHB19P PCDHB15 PCDHB12 PCDHB3 PCDHB9 PCDHB13
GH05I140637 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 13 -517.0 -516990 2.8 HDGF PKNOX1 SMAD1 FOXA2 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 TMCO6 HARS2 ANKHD1 WDR55 HDAC3 LOC102723915 SRA1 PURA MALINC1 CD14
GH05I141084 Enhancer 1.2 FANTOM5 Ensembl ENCODE 20.3 -71.3 -71251 1.4 CTCF SAP130 RAD21 YY1 ZNF335 E2F1 ZNF23 GATA3 POLR2A ZNF143 PCDHAC2 PCDHB17P PCDHB1 MALINC1 IGIP PCDHGC4 PCDHB3 PCDHB10 PCDHAC1 PCDHA12
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around PCDHB17P on UCSC Golden Path with GeneCards custom track

Genomic Locations for PCDHB17P Gene

Genomic Locations for PCDHB17P Gene
chr5:141,155,996-141,159,061
(GRCh38/hg38)
Size:
3,066 bases
Orientation:
Plus strand
chr5:140,535,580-140,537,990
(GRCh37/hg19)

Genomic View for PCDHB17P Gene

Genes around PCDHB17P on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PCDHB17P Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PCDHB17P Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PCDHB17P Gene

Proteins for PCDHB17P Gene

Post-translational modifications for PCDHB17P Gene

No Post-translational modifications

No data available for DME Specific Peptides for PCDHB17P Gene

Domains & Families for PCDHB17P Gene

Gene Families for PCDHB17P Gene

Suggested Antigen Peptide Sequences for PCDHB17P Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with PCDHB17P: view

No data available for Protein Domains and UniProtKB/Swiss-Prot for PCDHB17P Gene

Function for PCDHB17P Gene

Phenotypes From GWAS Catalog for PCDHB17P Gene

Animal Model Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for PCDHB17P Gene

Localization for PCDHB17P Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for PCDHB17P Gene

Pathways & Interactions for PCDHB17P Gene

SuperPathways for PCDHB17P Gene

No Data Available

Interacting Proteins for PCDHB17P Gene

Gene Ontology (GO) - Biological Process for PCDHB17P Gene

None

No data available for Pathways by source and SIGNOR curated interactions for PCDHB17P Gene

Drugs & Compounds for PCDHB17P Gene

No Compound Related Data Available

Transcripts for PCDHB17P Gene

mRNA/cDNA for PCDHB17P Gene

(12) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for PCDHB17P Gene

No ASD Table

Relevant External Links for PCDHB17P Gene

GeneLoc Exon Structure for
PCDHB17P
ECgene alternative splicing isoforms for
PCDHB17P

Expression for PCDHB17P Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PCDHB17P Gene

Integrated Proteomics: protein expression in normal tissues and cell lines from MOPED for PCDHB17P Gene



NURSA nuclear receptor signaling pathways regulating expression of PCDHB17P Gene:

PCDHB17P
genes like me logo Genes that share expression patterns with PCDHB17P: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for PCDHB17P Gene

Orthologs for PCDHB17P Gene

This gene was present in the common ancestor of mammals.

Orthologs for PCDHB17P Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PCDHB17 34
  • 71 (a)
OneToOne
cow
(Bos Taurus)
Mammalia -- 34
  • 60 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Pcdhb14 34
  • 57 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia -- 34
  • 45 (a)
ManyToMany
-- 34
  • 44 (a)
ManyToMany
-- 34
  • 44 (a)
ManyToMany
-- 34
  • 44 (a)
ManyToMany
-- 34
  • 44 (a)
ManyToMany
-- 34
  • 44 (a)
ManyToMany
-- 34
  • 43 (a)
ManyToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 43 (a)
ManyToMany
-- 34
  • 42 (a)
ManyToMany
-- 34
  • 42 (a)
ManyToMany
Species where no ortholog for PCDHB17P 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)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • dog (Canis familiaris)
  • 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)
  • lizard (Anolis carolinensis)
  • 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)
  • rat (Rattus norvegicus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for PCDHB17P Gene

ENSEMBL:
Gene Tree for PCDHB17P (if available)
TreeFam:
Gene Tree for PCDHB17P (if available)

Paralogs for PCDHB17P Gene

No data available for Paralogs for PCDHB17P Gene

Variants for PCDHB17P Gene

Sequence variations from dbSNP and Humsavar for PCDHB17P Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs1003436117 -- 141,155,656(+) C/T upstream_transcript_variant
rs1004418178 -- 141,156,072(+) A/T non_coding_transcript_variant
rs1004679598 -- 141,155,139(+) A/C upstream_transcript_variant
rs1004755374 -- 141,156,429(+) A/T non_coding_transcript_variant
rs1005156830 -- 141,154,972(+) C/A upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for PCDHB17P Gene

Variant ID Type Subtype PubMed ID
dgv1045e199 CNV deletion 23128226
esv25821 CNV loss 19812545
esv2759382 CNV gain 17122850
esv3606963 CNV loss 21293372
nsv10755 CNV loss 18304495
nsv428127 CNV loss 18775914
nsv471634 CNV gain+loss 15918152
nsv5029 CNV insertion 18451855
nsv509092 CNV insertion 20534489
nsv599908 CNV loss 21841781
nsv823266 CNV gain 20364138
nsv980736 CNV duplication 23825009

Variation tolerance for PCDHB17P Gene

Gene Damage Index Score: 6.51; 77.66% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PCDHB17P Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PCDHB17P

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PCDHB17P Gene

Disorders for PCDHB17P Gene

Additional Disease Information for PCDHB17P

No disorders were found for PCDHB17P Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PCDHB17P Gene

Publications for PCDHB17P Gene

  1. A striking organization of a large family of human neural cadherin-like cell adhesion genes. (PMID: 10380929) Wu Q … Maniatis T (Cell 1999) 2 3 58
  2. Comparative DNA sequence analysis of mouse and human protocadherin gene clusters. (PMID: 11230163) Wu Q … Maniatis T (Genome research 2001) 3 58
  3. The human and murine protocadherin-beta one-exon gene families show high evolutionary conservation, despite the difference in gene number. (PMID: 11322959) Vanhalst K … van Roy F (FEBS letters 2001) 3 58
  4. Large exons encoding multiple ectodomains are a characteristic feature of protocadherin genes. (PMID: 10716726) Wu Q … Maniatis T (Proceedings of the National Academy of Sciences of the United States of America 2000) 3 58
  5. Cadherin superfamily genes: functions, genomic organization, and neurologic diversity. (PMID: 10817752) Yagi T … Takeichi M (Genes & development 2000) 3 58

Products for PCDHB17P Gene

Sources for PCDHB17P Gene

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