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Aliases for SDC4P Gene

Subcategory (RNA class) for SDC4P Gene

lncRNA

Aliases for SDC4P Gene

  • Syndecan 4 Pseudogene 2 3 5

External Ids for SDC4P Gene

Previous GeneCards Identifiers for SDC4P Gene

  • GC22U990241
  • GC22M029202
  • GC22M029203
  • GC22M029204
  • GC22M030877
  • GC22M013839

Summaries for SDC4P Gene

GeneCards Summary for SDC4P Gene

SDC4P (Syndecan 4 Pseudogene) is a Pseudogene, and is affiliated with the lncRNA class.

fRNAdb sequence ontologies for SDC4P Gene

  • mature_transcript: A transcript which has undergone the necessary modifications, if any, for its function. In eukaryotes this includes, for example, processing of introns, cleavage, base modification, and modifications to the 5' and/or the 3' ends, other than addition of bases. In bacteria functional mRNAs are usually not modified.

View fRNAdb secondary structures for SDC4P

Additional gene information for SDC4P Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary and piRNA Summary for SDC4P Gene

Genomics for SDC4P Gene

GeneHancer (GH) Regulatory Elements for SDC4P Gene

Promoters and enhancers for SDC4P 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
GH22I030485 Enhancer 0.8 ENCODE 0.8 -3.7 -3658 0.2 RB1 ARID4B ZNF2 THRB ZNF48 RAD21 ARID2 ZNF143 RUNX3 SMARCA5 ENSG00000181123 SDC4P SEC14L4
GH22I030504 Promoter/Enhancer 1.6 EPDnew Ensembl ENCODE 0.3 -23.4 -23376 1.5 FOXA2 MLX SIN3A DMAP1 ZNF48 RXRA SP5 NFYC ZHX2 MXD4 SEC14L4 SLC35E4 SDC4P
GH22I030486 Enhancer 0.2 ENCODE 0.8 -4.9 -4858 0.2 SDC4P ENSG00000181123 SEC14L4
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SDC4P on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SDC4P gene promoter:

Genomic Locations for SDC4P Gene

Genomic Locations for SDC4P Gene
chr22:30,481,290-30,481,911
(GRCh38/hg38)
Size:
622 bases
Orientation:
Minus strand
chr22:30,877,277-30,877,898
(GRCh37/hg19)

Genomic View for SDC4P Gene

Genes around SDC4P on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SDC4P Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SDC4P Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SDC4P Gene

ORGUL Member Location for SDC4P Gene

ORGUL Member Location for SDC4P gene

Proteins for SDC4P Gene

Post-translational modifications for SDC4P Gene

No Post-translational modifications

No data available for DME Specific Peptides for SDC4P Gene

Domains & Families for SDC4P Gene

Graphical View of Domain Structure for InterPro Entry

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SDC4P Gene

Function for SDC4P Gene

Animal Model Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for SDC4P Gene

Localization for SDC4P 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 SDC4P Gene

Pathways & Interactions for SDC4P Gene

SuperPathways for SDC4P Gene

No Data Available

Interacting Proteins for SDC4P Gene

Gene Ontology (GO) - Biological Process for SDC4P Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SDC4P Gene

Drugs & Compounds for SDC4P Gene

No Compound Related Data Available

Transcripts for SDC4P Gene

fRNAdb Secondary structures for SDC4P Gene

  • NONHSAG033677

mRNA/cDNA for SDC4P Gene

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

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SDC4P Gene

No ASD Table

Relevant External Links for SDC4P Gene

GeneLoc Exon Structure for
SDC4P
ECgene alternative splicing isoforms for
SDC4P

Expression for SDC4P Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SDC4P Gene

mRNA differential expression in normal tissues according to GTEx for SDC4P Gene

This gene is overexpressed in Liver (x39.7) and Testis (x5.2).

NURSA nuclear receptor signaling pathways regulating expression of SDC4P Gene:

SDC4P

SOURCE GeneReport for Unigene cluster for SDC4P Gene:

Hs.534651
genes like me logo Genes that share expression patterns with SDC4P: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein expression , 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 SDC4P Gene

Orthologs for SDC4P Gene

Evolution for SDC4P Gene

ENSEMBL:
Gene Tree for SDC4P (if available)
TreeFam:
Gene Tree for SDC4P (if available)

No data available for Orthologs for SDC4P Gene

Paralogs for SDC4P Gene

No data available for Paralogs for SDC4P Gene

Variants for SDC4P Gene

Sequence variations from dbSNP and Humsavar for SDC4P Gene

SNP ID Clin Chr 22 pos Variation AA Info Type
rs1000494288 -- 30,482,288(-) A/G upstream_transcript_variant
rs1000890607 -- 30,482,740(-) T/C upstream_transcript_variant
rs1001357035 -- 30,481,443(-) C/A/T non_coding_transcript_variant
rs1001890298 -- 30,481,181(-) A/G downstream_transcript_variant
rs1005828996 -- 30,482,800(-) G/A upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for SDC4P Gene

Variant ID Type Subtype PubMed ID
nsv1110864 OTHER inversion 24896259
nsv829171 CNV loss 20364138

Additional Variant Information for SDC4P Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SDC4P

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for SDC4P Gene

Disorders for SDC4P Gene

Additional Disease Information for SDC4P

No disorders were found for SDC4P Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SDC4P Gene

Publications for SDC4P Gene

  1. Identification of a syndecan 4 pseudogene. (PMID: 12652906) Spring SC … Terman BI (DNA sequence : the journal of DNA sequencing and mapping 2002) 1 2 3 22 58
  2. Genetic variants associated with breast size also influence breast cancer risk. (PMID: 22747683) Eriksson N … Tung JY (BMC medical genetics 2012) 3 58
  3. RNAdb--a comprehensive mammalian noncoding RNA database. (PMID: 15608161) Pang KC … Mattick JS (Nucleic acids research 2005) 1

Products for SDC4P Gene

Sources for SDC4P Gene

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