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HAGLR HOXD antisense growth-associated long non-coding RNA [ Homo sapiens (human) ]

Gene ID: 401022, updated on 16-Mar-2024

Summary

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Official Symbol
HAGLRprovided by HGNC
Official Full Name
HOXD antisense growth-associated long non-coding RNAprovided by HGNC
Primary source
HGNC:HGNC:43755
See related
Ensembl:ENSG00000224189 MIM:618209; AllianceGenome:HGNC:43755
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
Mdgt; STEEL; HOXD-AS1; MIR7704HG
Expression
Biased expression in testis (RPKM 20.0), lung (RPKM 8.2) and 9 other tissues See more
Orthologs
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Genomic context

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See HAGLR in Genome Data Viewer
Location:
2q31.1
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (176173189..176188958, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (176661329..176677089, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (177037917..177053686, complement)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:177015997-177016730 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr2:177019995-177020498 Neighboring gene microRNA 10b Neighboring gene homeobox D4 Neighboring gene homeobox D3 Neighboring gene Sharpr-MPRA regulatory region 15219 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:177036349-177036959 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:177042291-177043085 Neighboring gene HAGLR opposite strand lncRNA Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr2:177056998-177057538 Neighboring gene microRNA 7704 Neighboring gene homeobox D1 Neighboring gene ribosomal protein lateral stalk subunit P1 pseudogene 4 Neighboring gene ribosomal protein SA pseudogene 25

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. LncRNA HAGLR silencing inhibits IL-1β-induced chondrocytes inflammatory injury via miR-130a-3p/JAK1 axis. Zuo Y, et al. J Orthop Surg Res, 2023 Mar 15. PMID 36918905, Free PMC Article
  2. Knockdown of lncRNA HAGLR promotes Treg cell differentiation through increasing the RUNX3 level in dermatomyositis. Yan W, et al. J Mol Histol, 2022 Apr. PMID 35064420
  3. Exosomal long noncoding RNA HOXD-AS1 promotes prostate cancer metastasis via miR-361-5p/FOXM1 axis. Jiang Y, et al. Cell Death Dis, 2021 Dec 4. PMID 34864822, Free PMC Article
  4. Long noncoding RNA HAGLR sponges miR-338-3p to promote 5-Fu resistance in gastric cancer through targeting the LDHA-glycolysis pathway. Hu J, et al. Cell Biol Int, 2022 Feb. PMID 34658120, Free PMC Article
  5. Silencing of long noncoding RNA HOXD-AS1 inhibits proliferation, cell cycle progression, migration and invasion of hepatocellular carcinoma cells through MEK/ERK pathway. Sun J, et al. J Cell Biochem, 2020 Jan. PMID 31231887

See all (43) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. HAGLR, stabilized by m6A modification, triggers PTEN-Akt signaling cascade-mediated RPE cell pyroptosis via sponging miR-106b-5p.
    Title: HAGLR, stabilized by m6A modification, triggers PTEN-Akt signaling cascade-mediated RPE cell pyroptosis via sponging miR-106b-5p.
  2. Long non-coding RNA Homeobox D gene cluster antisense growth-associated long noncoding RNA/microRNA-182-5p/Homeobox protein A10 alleviates postmenopausal osteoporosis via accelerating osteoblast differentiation of bone marrow mesenchymal stem cells.
    Title: Long non-coding RNA Homeobox D gene cluster antisense growth-associated long noncoding RNA/microRNA-182-5p/Homeobox protein A10 alleviates postmenopausal osteoporosis via accelerating osteoblast differentiation of bone marrow mesenchymal stem cells.
  3. LncRNA HAGLR May Aggravate Melanoma Malignancy Via miR-4644/ASB11 Pathway.
    Title: LncRNA HAGLR May Aggravate Melanoma Malignancy Via miR-4644/ASB11 Pathway.
  4. LncRNA HOXD-AS1 promotes oral squamous cell carcinoma by sponging miR-203a-5p.
    Title: LncRNA HOXD-AS1 promotes oral squamous cell carcinoma by sponging miR-203a-5p.
  5. LncRNA HAGLR silencing inhibits IL-1beta-induced chondrocytes inflammatory injury via miR-130a-3p/JAK1 axis.
    Title: LncRNA HAGLR silencing inhibits IL-1β-induced chondrocytes inflammatory injury via miR-130a-3p/JAK1 axis.
  6. Knockdown of lncRNA HAGLR promotes Treg cell differentiation through increasing the RUNX3 level in dermatomyositis.
    Title: Knockdown of lncRNA HAGLR promotes Treg cell differentiation through increasing the RUNX3 level in dermatomyositis.
  7. Long noncoding RNA HOXD-AS1 promotes the progression of pancreatic cancer through miR-664b-3p/PLAC8 axis.
    Title: Long noncoding RNA HOXD-AS1 promotes the progression of pancreatic cancer through miR-664b-3p/PLAC8 axis.
  8. Exosomal long noncoding RNA HOXD-AS1 promotes prostate cancer metastasis via miR-361-5p/FOXM1 axis.
    Title: Exosomal long noncoding RNA HOXD-AS1 promotes prostate cancer metastasis via miR-361-5p/FOXM1 axis.
  9. Long noncoding RNA HAGLR sponges miR-338-3p to promote 5-Fu resistance in gastric cancer through targeting the LDHA-glycolysis pathway.
    Title: Long noncoding RNA HAGLR sponges miR-338-3p to promote 5-Fu resistance in gastric cancer through targeting the LDHA-glycolysis pathway.
  10. LncRNA-HAGLR motivates triple negative breast cancer progression by regulation of WNT2 via sponging miR-335-3p.
    Title: LncRNA-HAGLR motivates triple negative breast cancer progression by regulation of WNT2 via sponging miR-335-3p.
Submit: New GeneRIF Correction See all GeneRIFs (33)

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
A genome-wide association study identifies susceptibility loci for ovarian cancer at 2q31 and 8q24.
EBI GWAS Catalog
GWAS meta-analysis and replication identifies three new susceptibility loci for ovarian cancer.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

General gene information

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Markers

Homology

Other Names

  • HOXD cluster antisense RNA 1 (non-protein coding)
  • MIR7704 host
  • spliced-transcript endothelial-enriched lncRNA

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

RNA

  1. NR_033979.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (10) uses an alternate upstream promoter and differs in the 5' exon structure, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC009336, CB153479
    Related
    ENST00000644334.1

  2. NR_110458.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript.
    Source sequence(s)
    AC009336, BG721643, DB026150, DB070590
    Related
    ENST00000416928.8

  3. NR_110459.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate upstream promoter and differs in the 5' exon structure, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC009336, DA326484, HY138745
    Related
    ENST00000452365.2

  4. NR_110460.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate upstream promoter and differs in the 5' exon structure, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC009336, DA326484, HY138745

  5. NR_110461.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) uses an alternate upstream promoter and differs in the 5' exon structure, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC009336, BC030713, DA736032

  6. NR_110462.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) lacks an alternate internal exon, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC009336, DB026150, HY018648

  7. NR_110463.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) differs in the 5' exon structure, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC009336, DB026150, DB100342

  8. NR_110464.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) differs in the 5' exon structure, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC009336, DB026150, DB100521

  9. NR_110465.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (8) uses an alternate upstream promoter and differs in the 5' exon structure, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC009336, DA398428, HY138745
    Related
    ENST00000642267.2

  10. NR_110466.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (9) uses an alternate upstream promoter and differs in the 5' exon structure, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC009336
    Related
    ENST00000643050.2

  11. NR_110467.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (11) differs in the 5' exon structure, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC009336, BC030713, DB026150, DB045673

  12. NR_110468.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (12) differs in the 5' exon structure, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC009336, DB026150, DB067012

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    176173189..176188958 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    176661329..176677089 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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