Aliases for LOC400553 Gene

Subcategory (RNA class) for LOC400553 Gene

lncRNA

Quality Score for this RNA gene is

11

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 for LOC400553 Gene

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 750.6 -0.3 -313 1.4 GLIS2 ZIC2 ZBTB17 PRDM4 ZNF335 GLIS1 ENSG00000205037 LOC400553 piR-55356-002
GH16J088099 Enhancer 0.4 ENCODE 750.6 +1.9 1855 0.2 FOS POLR2A CTCF ENSG00000205037 LOC400553 piR-37377
GH16J088103 Enhancer 0.3 dbSUPER 0.6 -2.5 -2496 0.5 MNT ZBTB2 ENSG00000205037 LOC400553 piR-55356-002
GH16J088105 Enhancer 0.3 dbSUPER 0.6 -5.0 -4955 0.8 MLLT1 piR-55356-002 ENSG00000205037 LOC400553
GH16J088107 Enhancer 0.3 Ensembl 0.4 -6.7 -6716 0.2 ZIC2 piR-55356-002 ENSG00000205037 LOC400553
- 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 UCSC Golden Path with GeneCards custom track

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

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 StructureGene Density

RefSeq DNA sequence for LOC400553 Gene

Proteins for LOC400553 Gene

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

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 and SIGNOR curated interactions for LOC400553 Gene

Drugs & Compounds for LOC400553 Gene

No Compound Related Data Available

Transcripts for LOC400553 Gene

mRNA/cDNA for LOC400553 Gene

(1) REFSEQ mRNAs :
(2) Additional mRNA sequences :
(5) Selected AceView cDNA sequences:
(1) RNACentral transcripts :

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

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE 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).

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

Sequence variations from dbSNP and Humsavar for LOC400553 Gene

SNP ID Clin Chr 16 pos Variation AA Info Type
rs1000370920 -- 88,101,054(-) G/A upstream_transcript_variant
rs1000925378 -- 88,101,910(-) G/A upstream_transcript_variant
rs1001806956 -- 88,101,219(-) T/C/G upstream_transcript_variant
rs1002803792 -- 88,102,062(-) C/T upstream_transcript_variant
rs1003268034 -- 88,099,688(-) T/A intron_variant

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 , 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 External Links for LOC400553 Gene

Products for LOC400553 Gene

Sources for LOC400553 Gene