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Aliases for HAR1A Gene

Subcategory (RNA class) for HAR1A Gene

non-coding RNA

Quality Score for this RNA gene is

13

Aliases for HAR1A Gene

  • Highly Accelerated Region 1A 2 3 5
  • Highly Accelerated Region 1A (Non-Protein-Coding RNA) 2 3
  • Highly Accelerated Region 1A (Non-Protein Coding) 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) is an RNA Gene, and is affiliated with the non-coding RNA class. Diseases associated with HAR1A include Central Nervous System Disease and Huntington Disease.

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
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH20J063101 Promoter/Enhancer 1.4 Ensembl ENCODE 612.3 +1.2 1203 1.8 ZNF687 SP7 CREM PRDM1 MLLT1 CREB1 GLIS2 EZH2 ZBTB8A ZNF600 HAR1B HAR1A GC20P063103 ENSG00000274915 GC20P063099 LOC105372719
GH20J063100 Promoter 0.7 Ensembl 607.4 -0.6 -591 0.2 PRDM10 ZBTB17 PRDM4 HAR1A ENSG00000274915 GC20P063099 GC20P063103 HAR1B
GH20J063953 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 12.1 +855.2 855215 5.5 HDGF ZNF652 SP1 ZFX ELF3 ZKSCAN8 MNT SIX5 CBFA2T2 ZNF148 UCKL1 PIR62018 ARFRP1 TNFRSF6B STMN3 TCEA2 HAR1A ENSG00000237371 RTEL1 ZBTB46
GH20J063657 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 12.1 +557.1 557147 2.7 HDGF MTA3 ZNF652 SP1 CC2D1A ZFX ELF3 MNT SIX5 ZNF148 RTEL1 STMN3 RTEL1-TNFRSF6B DIDO1 MIR647 GMEB2 UCKL1 CICP4 PRPF6 YTHDF1
GH20J063444 Enhancer 0.6 Ensembl 12.1 +341.7 341709 0.4 CREB1 CTBP1 E4F1 ZNF248 HCFC1 GATAD2B SALL2 ZNF513 YY2 ZNF133 GC20P063443 RTEL1 TCEA2 PRPF6 DIDO1 YTHDF1 GMEB2 STMN3 UCKL1 HAR1A
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around HAR1A on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the HAR1A gene promoter:
  • En-1
  • FOXO1
  • FOXO1a
  • GATA-1
  • SRY
  • STAT5B
  • USF-1
  • USF1
  • Zic3

Genomic Locations for HAR1A Gene

Genomic Locations for HAR1A Gene
chr20:63,101,292-63,104,386
(GRCh38/hg38)
Size:
3,095 bases
Orientation:
Plus strand
chr20:61,732,644-61,735,738
(GRCh37/hg19)
Size:
3,095 bases
Orientation:
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

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

Phenotypes From GWAS Catalog for HAR1A 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 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

PathCards logo

SuperPathways for HAR1A Gene

No Data Available

Interacting Proteins for HAR1A Gene

Gene Ontology (GO) - Biological Process for HAR1A Gene

None

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 to gene/alias where relevant :
(2) RNA Central transcripts :

Unigene Clusters for HAR1A Gene

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

CRISPR Products

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

No ASD Table

Relevant External Links for HAR1A Gene

GeneLoc Exon Structure for
HAR1A
ECgene alternative splicing isoforms for
HAR1A

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:

HAR1A

SOURCE GeneReport for Unigene cluster for HAR1A Gene:

Hs.549606
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
mouse
(Mus musculus)
Mammalia Gm22842 35
  • 86 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia HAR1A 35
  • 86 (a)
OneToOne
dog
(Canis familiaris)
Mammalia HAR1A 35
  • 85 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia HAR1A 35
  • 84 (a)
OneToOne
cow
(Bos Taurus)
Mammalia HAR1A 35
  • 83 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia HAR1A 35
  • 81 (a)
OneToOne
chicken
(Gallus gallus)
Aves HAR1A 35
  • 83 (a)
OneToOne
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

ENSEMBL:
Gene Tree for HAR1A (if available)
TreeFam:
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/T 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
HAR1A

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

MalaCards: The human disease database

(4) MalaCards diseases for HAR1A Gene - From: LncRNADisease and DISEASES

- elite association - COSMIC cancer census association via MalaCards
Search HAR1A in MalaCards View complete list of genes associated with diseases

Additional Disease Information for HAR1A

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

No data available for 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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