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Aliases for HAR1A Gene

Subcategory (RNA class) for HAR1A Gene

non-coding RNA

Quality Score for this RNA gene is


Aliases for HAR1A Gene

  • Highly Accelerated Region 1A (Non-Protein Coding) 2 3 5
  • Highly Accelerated Region 1A (Non-Protein-Coding RNA) 2 3
  • Long Intergenic Non-Protein Coding RNA 64 2 3
  • Human Accelerated Region 1, Forward 2 3
  • Non-Protein Coding RNA 64 2
  • NCRNA00064 3
  • LINC00064 3
  • HAR1F 3

External Ids for HAR1A Gene

Previous GeneCards Identifiers for HAR1A Gene

  • GC20U900285
  • GC20P061203
  • GC20P061732
  • GC20P058450

Summaries for HAR1A Gene

GeneCards Summary for HAR1A Gene

HAR1A (Highly Accelerated Region 1A (Non-Protein Coding)) is an RNA Gene, and is affiliated with the non-coding RNA class.

Additional gene information for HAR1A 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 HAR1A Gene

Genomics for HAR1A Gene

GeneHancer (GH) Regulatory Elements for HAR1A Gene

Promoters and enhancers for HAR1A 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
GH20I063101 Promoter/Enhancer 1.4 Ensembl ENCODE 562.4 +1.1 1142 1.7 PKNOX1 RB1 ZSCAN4 SIN3A NFXL1 BMI1 ZNF48 GLIS2 ZNF366 IKZF2 HAR1B HAR1A ENSG00000274915 GC20P063103 LAMA5 RPS21 SOX18 GC20P063099 LOC105372719
GH20I063953 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 12.1 +855.2 855215 5.5 CLOCK MLX ZFP64 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC GLIS1 UCKL1 PIR62018 ARFRP1 TNFRSF6B STMN3 TCEA2 HAR1A RTEL1 ZBTB46 ZNF512B
GH20I063657 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 12.1 +557.1 557143 2.7 ZFP64 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SP3 NFYC RTEL1 STMN3 RTEL1-TNFRSF6B DIDO1 MIR647 GMEB2 UCKL1 CICP4 TCEA2 MRGBP
GH20I062500 Enhancer 1.6 FANTOM5 Ensembl ENCODE 12.1 -599.7 -599669 2.8 HDGF PKNOX1 SMAD1 ARNT ARID4B NEUROD1 SIN3A YBX1 ZNF2 ZBTB7B DIDO1 TAF4 LAMA5 ENSG00000226332 MRGBP RPS21 HAR1A MTG2 YTHDF1 DPH3P1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around HAR1A on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the HAR1A gene promoter:

Genomic Locations for HAR1A Gene

Genomic Locations for HAR1A Gene
3,095 bases
Plus strand

Genomic View for HAR1A Gene

Genes around HAR1A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HAR1A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HAR1A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HAR1A Gene

Proteins for HAR1A Gene

Post-translational modifications for HAR1A Gene

No Post-translational modifications

No data available for DME Specific Peptides for HAR1A Gene

Domains & Families for HAR1A Gene

Gene Families for HAR1A Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with HAR1A: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for HAR1A Gene

Function for HAR1A Gene

Animal Model 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 HAR1A Gene

Localization for HAR1A 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 HAR1A Gene

Pathways & Interactions for HAR1A Gene

SuperPathways for HAR1A Gene

No Data Available

Interacting Proteins for HAR1A Gene

Gene Ontology (GO) - Biological Process for HAR1A Gene


No data available for Pathways by source and SIGNOR curated interactions for HAR1A Gene

Drugs & Compounds for HAR1A Gene

No Compound Related Data Available

Transcripts for HAR1A Gene

mRNA/cDNA for HAR1A Gene

(4) Additional mRNA sequences :
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for HAR1A Gene

Highly accelerated region 1A (non-protein coding):
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for HAR1A Gene

No ASD Table

Relevant External Links for HAR1A Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for HAR1A Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for HAR1A Gene

mRNA differential expression in normal tissues according to GTEx for HAR1A Gene

This gene is overexpressed in Brain - Cortex (x5.8), Brain - Frontal Cortex (BA9) (x4.7), and Brain - Nucleus accumbens (basal ganglia) (x4.1).

NURSA nuclear receptor signaling pathways regulating expression of HAR1A Gene:


SOURCE GeneReport for Unigene cluster for HAR1A Gene:

genes like me logo Genes that share expression patterns with HAR1A: 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 HAR1A Gene

Orthologs for HAR1A Gene

This gene was present in the common ancestor of chordates.

Orthologs for HAR1A Gene

Organism Taxonomy Gene Similarity Type Details
(Mus musculus)
Mammalia Gm22842 34
  • 86 (a)
(Pan troglodytes)
Mammalia HAR1A 34
  • 86 (a)
(Canis familiaris)
Mammalia HAR1A 34
  • 85 (a)
(Monodelphis domestica)
Mammalia HAR1A 34
  • 84 (a)
(Bos Taurus)
Mammalia HAR1A 34
  • 83 (a)
(Ornithorhynchus anatinus)
Mammalia HAR1A 34
  • 81 (a)
(Gallus gallus)
Aves HAR1A 34
  • 83 (a)
Species where no ortholog for HAR1A 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)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • 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 HAR1A Gene

Gene Tree for HAR1A (if available)
Gene Tree for HAR1A (if available)

Paralogs for HAR1A Gene

No data available for Paralogs for HAR1A Gene

Variants for HAR1A Gene

Sequence variations from dbSNP and Humsavar for HAR1A Gene

SNP ID Clin Chr 20 pos Variation AA Info Type
rs1001321404 -- 63,102,544(+) C/G non_coding_transcript_variant
rs1001498972 -- 63,102,251(+) C/G non_coding_transcript_variant
rs1001718196 -- 63,101,958(+) C/G/T non_coding_transcript_variant
rs1002876147 -- 63,101,451(+) G/A non_coding_transcript_variant
rs1003049804 -- 63,104,522(+) G/C downstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for HAR1A Gene

Variant ID Type Subtype PubMed ID
dgv68n68 CNV loss 17160897
esv1000562 CNV insertion 20482838
esv2537683 CNV loss 19546169
esv3433872 CNV duplication 20981092
esv3442438 CNV insertion 20981092
esv3893358 CNV loss 25118596
nsv3444 CNV insertion 18451855
nsv513560 CNV insertion 21212237
nsv586535 CNV gain 21841781
nsv834028 CNV loss 17160897
nsv953305 CNV deletion 24416366
nsv9825 CNV gain 18304495

Additional Variant Information for HAR1A Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for HAR1A Gene

Disorders for HAR1A Gene

Additional Disease Information for HAR1A

No disorders were found for HAR1A Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HAR1A Gene

Publications for HAR1A Gene

  1. An RNA gene expressed during cortical development evolved rapidly in humans. (PMID: 16915236) Pollard KS … Haussler D (Nature 2006) 2 3 58
  2. lncRNAdb: a reference database for long noncoding RNAs. (PMID: 21112873) Amaral PP … Mattick JS (Nucleic acids research 2011) 3 58
  3. Rapid evolving RNA gene HAR1A and schizophrenia. (PMID: 18054202) Tolosa A … de Frutos R (Schizophrenia research 2008) 3 58
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 3 58

Products for HAR1A Gene

Sources for HAR1A Gene

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