Free for academic non-profit institutions. Other users need a Commercial license

Aliases for HLCS-IT1 Gene

Subcategory (RNA class) for HLCS-IT1 Gene

non-coding RNA

Quality Score for this RNA gene is


Aliases for HLCS-IT1 Gene

  • HLCS Intronic Transcript 1 2 3 5
  • HLCS Intronic Transcript 1 (Non-Protein Coding) 2 3
  • Bde1 3

External Ids for HLCS-IT1 Gene

Previous GeneCards Identifiers for HLCS-IT1 Gene

  • GC00U932982
  • GC21M038177

Summaries for HLCS-IT1 Gene

GeneCards Summary for HLCS-IT1 Gene

HLCS-IT1 (HLCS Intronic Transcript 1) is an RNA Gene, and is affiliated with the non-coding RNA class.

Additional gene information for HLCS-IT1 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 HLCS-IT1 Gene

Genomics for HLCS-IT1 Gene

GeneHancer (GH) Regulatory Elements for HLCS-IT1 Gene

Promoters and enhancers for HLCS-IT1 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH21J036806 Enhancer 0.4 Ensembl ENCODE 600.7 -1.3 -1285 1.4 HLCS-IT1 ENSG00000224269 SIM2 HLCS LOC105369305
GH21J036805 Enhancer 0.2 Ensembl 600.7 +1.2 1183 0.2 HLCS-IT1 ENSG00000224269 SIM2 GC21P036720 GC21P036719 HLCS
GH21J036787 Enhancer 1 Ensembl ENCODE 0.4 +17.8 17783 1.4 MYC KLF14 PRDM1 FOSL2 GLIS2 ZNF600 PRDM10 ZIC2 ZNF692 ZNF341 ENSG00000242553 HLCS HLCS-IT1 GC21P036719 GC21P036720
GH21J036783 Enhancer 1 Ensembl ENCODE 0.3 +22.1 22066 1.2 ZSCAN21 SP7 PRDM10 ZSCAN4 ZEB2 ZNF639 ZNF629 ZNF692 ZNF239 JUN DYRK1A ENSG00000242553 SETD4 MORC3 SIM2 HLCS-IT1 GC21P036720 GC21P036719 HLCS
GH21J036792 Enhancer 0.8 Ensembl ENCODE 0.4 +13.9 13933 1.5 ZNF600 SCRT2 EZH2 MNT POLR2A USF2 ZSCAN5A FOS SIM2 ENSG00000224269 CLDN14 HLCS HLCS-IT1 GC21P036719 GC21P036720
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around HLCS-IT1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for HLCS-IT1 Gene

Genomic Locations for HLCS-IT1 Gene
2,301 bases
Minus strand
2,301 bases
Minus strand

Genomic View for HLCS-IT1 Gene

Genes around HLCS-IT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HLCS-IT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HLCS-IT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

No data available for RefSeq DNA sequence for HLCS-IT1 Gene

Proteins for HLCS-IT1 Gene

Post-translational modifications for HLCS-IT1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for HLCS-IT1 Gene

Domains & Families for HLCS-IT1 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 HLCS-IT1 Gene

Function for HLCS-IT1 Gene

Phenotypes From GWAS Catalog for HLCS-IT1 Gene

Animal Model Products

CRISPR 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 HLCS-IT1 Gene

Localization for HLCS-IT1 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 HLCS-IT1 Gene

Pathways & Interactions for HLCS-IT1 Gene

PathCards logo

SuperPathways for HLCS-IT1 Gene

No Data Available

Interacting Proteins for HLCS-IT1 Gene

Gene Ontology (GO) - Biological Process for HLCS-IT1 Gene


No data available for Pathways by source and SIGNOR curated interactions for HLCS-IT1 Gene

Drugs & Compounds for HLCS-IT1 Gene

No Compound Related Data Available

Transcripts for HLCS-IT1 Gene

mRNA/cDNA for HLCS-IT1 Gene

(1) Additional mRNA sequences :
(1) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
(1) RNA Central transcripts :

CRISPR Products

Alternative Splicing Database (ASD) splice patterns (SP) for HLCS-IT1 Gene

No ASD Table

Relevant External Links for HLCS-IT1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for HLCS-IT1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for HLCS-IT1 Gene

mRNA differential expression in normal tissues according to GTEx for HLCS-IT1 Gene

This gene is overexpressed in Testis (x9.6).
genes like me logo Genes that share expression patterns with HLCS-IT1: 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 HLCS-IT1 Gene

Orthologs for HLCS-IT1 Gene

Evolution for HLCS-IT1 Gene

Gene Tree for HLCS-IT1 (if available)
Gene Tree for HLCS-IT1 (if available)

No data available for Orthologs for HLCS-IT1 Gene

Paralogs for HLCS-IT1 Gene

No data available for Paralogs for HLCS-IT1 Gene

Variants for HLCS-IT1 Gene

Additional Variant Information for HLCS-IT1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations from dbSNP and Humsavar , Structural Variations from Database of Genomic Variants (DGV) and Variation tolerance for HLCS-IT1 Gene

Disorders for HLCS-IT1 Gene

No disorders were found for HLCS-IT1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot , Genatlas and External Links for HLCS-IT1 Gene

Publications for HLCS-IT1 Gene

No publications were found for HLCS-IT1 Gene.

Products for HLCS-IT1 Gene

Sources for HLCS-IT1 Gene

Loading form....