LOC400553 Gene (RNA Gene)

Uncharacterized LOC400553

GC16M088099
GIFtS:
8
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Aliases for LOC400553 Gene

Subcategory (RNA class) for LOC400553 Gene

lncRNA

Aliases for LOC400553 Gene

  • Uncharacterized LOC400553 3

External Ids for LOC400553 Gene

Previous GeneCards Identifiers for LOC400553 Gene

  • GC16M087903
  • GC16M086679
  • GC16M086682
  • GC16M088124
  • GC16M088088

Summaries for LOC400553 Gene

GeneCards Summary for LOC400553 Gene

LOC400553 (Uncharacterized LOC400553) is an RNA Gene, and is affiliated with the lncRNA class.

Additional gene information for LOC400553 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LOC400553 Gene

Genomics for LOC400553 Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for LOC400553 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
GH16J088100 Promoter/Enhancer 1 Ensembl CraniofacialAtlas dbSUPER 600.7 -0.3 -313 1.4 ZIC2 ZNF600 ZBTB17 ZNF335 PRDM4 GLIS1 GLIS2 ENSG00000205037 LOC400553 piR-55356-002 LOC105369246 LOC107984862
GH16J088099 Enhancer 0.5 ENCODE 600.7 +1.9 1855 0.2 CEBPB FOS CTCF POLR2A RAD21 ENSG00000205037 LOC400553 piR-37377 LOC105369246 LOC107984862
GH16J088105 Enhancer 0.3 dbSUPER 0.7 -5.0 -4955 0.8 ZNF23 MLLT1 piR-55356-002 LOC101928659 CTU2 ENSG00000205037 LOC400553 LOC105369246 LOC107984862
GH16J088103 Enhancer 0.3 dbSUPER 0.7 -2.5 -2496 0.5 MNT ZBTB2 ENSG00000205037 LOC400553 piR-55356-002 LOC105369246 LOC107984862
GH16J088107 Enhancer 0.3 Ensembl 0.4 -6.7 -6716 0.2 ZIC2 piR-55356-002 ENSG00000205037 LOC400553 LOC105369246 LOC107984862
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LOC400553 on the GeneHancer Hub at the UCSC Golden Path

Top Transcription factor binding sites by QIAGEN in the LOC400553 gene promoter:
  • AP-2rep
  • c-Myc
  • CP2
  • FOXO4
  • GR
  • GR-alpha
  • Max1
  • MyoD
  • Nkx2-5
  • STAT5A

Genomic Locations for LOC400553 Gene

Genomic Locations for LOC400553 Gene
chr16:88,099,409-88,100,985
(GRCh38/hg38)
Size:
1,577 bases
Orientation:
Minus strand
chr16:88,121,647-88,134,591
(GRCh37/hg19)
Size:
12,945 bases
Orientation:
Minus strand

Genomic View for LOC400553 Gene

Genes around LOC400553 on UCSC Golden Path with GeneCards custom track
LOC400553 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Cytogenetic band:
LOC400553 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LOC400553 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for LOC400553 Gene

Proteins for LOC400553 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

Post-translational modifications for LOC400553 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LOC400553 Gene

Domains & Families for LOC400553 Gene

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LOC400553 Gene

Function for LOC400553 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

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 LOC400553 Gene

Localization for LOC400553 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 LOC400553 Gene

Pathways & Interactions for LOC400553 Gene

PathCards logo

SuperPathways for LOC400553 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LOC400553 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for LOC400553 Gene

Drugs & Compounds for LOC400553 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for LOC400553 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

Non-coding RNA (ncRNA) Transcripts from RNAcentral for LOC400553 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS000075B911_9606 lncRNA 414 1

RefSeq: NR_120310,

LOC400553 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for LOC400553 Gene

2 NCBI additional mRNA sequence :

Alternative Splicing Database (ASD) splice patterns (SP) for LOC400553 Gene

No ASD Table

Relevant External Links for LOC400553 Gene

GeneLoc Exon Structure for
LOC400553

Expression for LOC400553 Gene

Products:

  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LOC400553 Gene

mRNA expression in normal human tissues for LOC400553 Gene
mRNA expression by GTEx for LOC400553 Gene

mRNA differential expression in normal tissues according to GTEx for LOC400553 Gene

This gene is overexpressed in Brain - Cortex (x9.1), Brain - Frontal Cortex (BA9) (x7.3), Brain - Anterior cingulate cortex (BA24) (x7.2), and Brain - Hippocampus (x4.1).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LOC400553

SOURCE GeneReport for Unigene cluster for LOC400553 Gene:

Hs.592071
genes like me logo Genes that share expression patterns with LOC400553: view

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 LOC400553 Gene

Orthologs for LOC400553 Gene

No data available for Orthologs and Evolution for LOC400553 Gene

Paralogs for LOC400553 Gene

No data available for Paralogs for LOC400553 Gene

Variants for LOC400553 Gene

Products:

  1. SNP Genotyping and Copy Number Assay

Additional dbSNP identifiers (rs#s) for LOC400553 Gene

Structural Variations from Database of Genomic Variants (DGV) for LOC400553 Gene

Variant ID Type Subtype PubMed ID
esv2761936 CNV gain 21179565
nsv1058465 CNV gain 25217958
nsv1065300 CNV gain 25217958
nsv1922 CNV deletion 18451855
nsv952068 CNV deletion 24416366

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP , Variation tolerance and Additional Variant Information for LOC400553 Gene

Disorders for LOC400553 Gene

No disorders were found for LOC400553 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot , Genatlas and External Links for LOC400553 Gene

Publications for LOC400553 Gene

No publications were found for LOC400553 Gene.

No data available for Mastermind for LOC400553 Gene

Products for LOC400553 Gene

Sources for LOC400553 Gene