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RUNX1-IT1 RUNX1 intronic transcript 1 [ Homo sapiens (human) ]

Gene ID: 80215, updated on 17-Sep-2024

Summary

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Official Symbol
RUNX1-IT1provided by HGNC
Official Full Name
RUNX1 intronic transcript 1provided by HGNC
Primary source
HGNC:HGNC:16623
See related
AllianceGenome:HGNC:16623
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
C21orf96
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Genomic context

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See RUNX1-IT1 in Genome Data Viewer
Location:
21q22.12
Exon count:
1
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 21 NC_000021.9 (35037925..35039426, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 21 NC_060945.1 (33420725..33422210, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 21 NC_000021.8 (36410222..36411723, complement)

Chromosome 21 - NC_000021.9Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:36118001-36118502 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:36118503-36119002 Neighboring gene Sharpr-MPRA regulatory region 10169 Neighboring gene long intergenic non-protein coding RNA 1426 Neighboring gene RUNX1 element RE2 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr21:36208094-36209293 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr21:36237597-36238796 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr21:36239537-36240204 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr21:36240205-36240870 Neighboring gene RUNX family transcription factor 1 Neighboring gene RUNX1 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13274 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr21:36258151-36258922 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18406 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13275 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18408 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18407 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr21:36258923-36259694 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13276 Neighboring gene Sharpr-MPRA regulatory region 10978 Neighboring gene NANOG hESC enhancer GRCh37_chr21:36332885-36333440 Neighboring gene Sharpr-MPRA regulatory region 10330 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18410 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18411 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18412 Neighboring gene Sharpr-MPRA regulatory region 3099 Neighboring gene Sharpr-MPRA regulatory region 4684 Neighboring gene RUNX1 enhancer RE1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18413 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18414 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13277 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18415 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18416 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18417 Neighboring gene ReSE screen-validated silencer GRCh37_chr21:36466332-36466488 Neighboring gene ReSE screen-validated silencer GRCh37_chr21:36477528-36477706 Neighboring gene Sharpr-MPRA regulatory region 12281 Neighboring gene uncharacterized LOC124905015 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr21:36589399-36590598 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr21:36604354-36605553 Neighboring gene enhancer 4 sub-fragment of super-enhancer upstream of RUNX1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:36646465-36646966 Neighboring gene NANOG hESC enhancer GRCh37_chr21:36743463-36743964 Neighboring gene uncharacterized LOC100506403 Neighboring gene Sharpr-MPRA regulatory region 14404 Neighboring gene Sharpr-MPRA regulatory region 5568 Neighboring gene NANOG hESC enhancer GRCh37_chr21:36786783-36787398 Neighboring gene ribosomal protein L34 pseudogene 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. LncRNA RUNX1-IT1 inhibits proliferation and promotes apoptosis of hepatocellular carcinoma by regulating MAPK pathways. Yan PH, et al. Eur Rev Med Pharmacol Sci, 2019 Oct. PMID 31646558
  2. LncRNA RUNX1-IT1 is downregulated in gastric cancer and suppresses the maturation of miR-20a by binding to its precursor. Bao L, et al. Histol Histopathol, 2023 Nov. PMID 36722424
  3. LncRNA RUNX1-IT1 affects the differentiation of Th1 cells by regulating NrCAM transcription in Graves' disease. Huang FJ, et al. Cell Cycle, 2022 May. PMID 35220890, Free PMC Article
  4. [LncRNA RUNX1-IT1 regulating malignant pleomorphic adenoma via mir-195/CyclinD1]. Wei JS, et al. Shanghai Kou Qiang Yi Xue, 2023 Feb. PMID 36973850
  5. MiR-195 connects lncRNA RUNX1-IT1 and cyclin D1 to regulate the proliferation of glioblastoma cells. Wu Z. Int J Neurosci, 2023 Jan. PMID 33507136

See all (10) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. LncRNA RUNX1-IT1 is downregulated in gastric cancer and suppresses the maturation of miR-20a by binding to its precursor.
    Title: LncRNA RUNX1-IT1 is downregulated in gastric cancer and suppresses the maturation of miR-20a by binding to its precursor.
  2. [LncRNA RUNX1-IT1 regulating malignant pleomorphic adenoma via mir-195/CyclinD1].
    Title: [LncRNA RUNX1-IT1 regulating malignant pleomorphic adenoma via mir-195/CyclinD1].
  3. MiR-195 connects lncRNA RUNX1-IT1 and cyclin D1 to regulate the proliferation of glioblastoma cells.
    Title: MiR-195 connects lncRNA RUNX1-IT1 and cyclin D1 to regulate the proliferation of glioblastoma cells.
  4. LncRNA RUNX1-IT1 affects the differentiation of Th1 cells by regulating NrCAM transcription in Graves' disease.
    Title: LncRNA RUNX1-IT1 affects the differentiation of Th1 cells by regulating NrCAM transcription in Graves' disease.
  5. The lncRNA RUNX1-IT1 regulates C-FOS transcription by interacting with RUNX1 in the process of pancreatic cancer proliferation, migration and invasion.
    Title: The lncRNA RUNX1-IT1 regulates C-FOS transcription by interacting with RUNX1 in the process of pancreatic cancer proliferation, migration and invasion.
  6. LncRNA RUNX1-IT1 inhibits proliferation and promotes apoptosis of hepatocellular carcinoma by regulating MAPK pathways.
    Title: LncRNA RUNX1-IT1 inhibits proliferation and promotes apoptosis of hepatocellular carcinoma by regulating MAPK pathways.
Submit: New GeneRIF Correction

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

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

Other Names

  • RUNX1 intronic transcript 1 (non-protein coding)

Clone Names

  • FLJ20856

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_026812.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AF015262, AK024509, AW001989, BC117305

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000021.9 Reference GRCh38.p14 Primary Assembly

    Range
    35037925..35039426 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060945.1 Alternate T2T-CHM13v2.0

    Range
    33420725..33422210 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_025143.1: Suppressed sequence

    Description
    NM_025143.1: This RefSeq was suppressed temporarily based on the calculation that the annotated protein was shorter than a protein or proteins from a putative ortholog.
Nucleotide Protein
Heading Accession and Version

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