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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.

No data available for Entrez Gene 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

Regulatory Elements for HAR1A Gene

Enhancers for HAR1A Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH20F063101 0.9 ENCODE 12.4 +1.1 1143 1.7 PKNOX1 NFXL1 ZNF48 GLIS2 ZNF366 CREM ZEB2 ZFP69B ZNF341 GLIS1 HAR1B HAR1A MIR4758 SOX18 LOC105372719
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around HAR1A on UCSC Golden Path with GeneCards custom track

Promoters for HAR1A Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000404281 1208 1401 PKNOX1 NFXL1 ZNF48 GLIS2 ZNF366 CREM ZEB2 ZFP69B ZNF341 GLIS1

Genomic Location for HAR1A Gene

63,101,292 bp from pter
63,104,386 bp from pter
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) , 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 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

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:

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 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 and mRNA Expression by UniProt/SwissProt 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 35
  • 86 (a)
(Pan troglodytes)
Mammalia HAR1A 35
  • 86 (a)
(Canis familiaris)
Mammalia HAR1A 35
  • 85 (a)
(Monodelphis domestica)
Mammalia HAR1A 35
  • 84 (a)
(Bos Taurus)
Mammalia HAR1A 35
  • 83 (a)
(Ornithorhynchus anatinus)
Mammalia HAR1A 35
  • 81 (a)
(Gallus gallus)
Aves HAR1A 35
  • 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 Sequence Context AA Info Type
rs111308366 -- 63,101,714(+) CTCCC(C/T)CTCTC intron-variant, nc-transcript-variant
rs111317876 -- 63,102,272(+) CGAAT(C/G)CCGTT nc-transcript-variant
rs111339348 -- 63,101,425(+) CAGGG(C/T)AGCCC intron-variant, nc-transcript-variant
rs111435192 -- 63,102,838(+) CTCAC(A/G)CTGCA nc-transcript-variant, upstream-variant-2KB
rs111489452 -- 63,101,565(+) TCTCT(-/CC/CTCC)CTCTC intron-variant, nc-transcript-variant

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

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

Relevant External Links for HAR1A Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

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

Disorders for HAR1A Gene

Relevant External Links for HAR1A

Atlas of Genetics and Cytogenetics in Oncology and Haematology:

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 K.S. … Haussler D. (Nature 2006) 2 3 64
  2. lncRNAdb: a reference database for long noncoding RNAs. (PMID: 21112873) Amaral P.P. … Mattick J.S. (Nucleic Acids Res. 2011) 3 64
  3. Rapid evolving RNA gene HAR1A and schizophrenia. (PMID: 18054202) Tolosa A. … de Frutos R. (Schizophr. Res. 2008) 3 64
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3 64

Products for HAR1A Gene

Sources for HAR1A Gene

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