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Aliases for RUNX1-IT1 Gene

Subcategory (RNA class) for RUNX1-IT1 Gene


Quality Score for this RNA gene is


Aliases for RUNX1-IT1 Gene

  • RUNX1 Intronic Transcript 1 2 3
  • RUNX1 Intronic Transcript 1 (Non-Protein Coding) 2 3
  • Chromosome 21 Open Reading Frame 96 2
  • C21orf96 3

External Ids for RUNX1-IT1 Gene

ORGUL Members for RUNX1-IT1 Gene

Previous HGNC Symbols for RUNX1-IT1 Gene

  • C21orf96

Previous GeneCards Identifiers for RUNX1-IT1 Gene

  • GC21M036411

Summaries for RUNX1-IT1 Gene

GeneCards Summary for RUNX1-IT1 Gene

RUNX1-IT1 (RUNX1 Intronic Transcript 1) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with RUNX1-IT1 include Gastric Cancer.

Additional gene information for RUNX1-IT1 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 RUNX1-IT1 Gene

Genomics for RUNX1-IT1 Gene

GeneHancer (GH) Regulatory Elements for RUNX1-IT1 Gene

Promoters and enhancers for RUNX1-IT1 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
GH21J035035 Promoter/Enhancer 1.4 Ensembl ENCODE dbSUPER 600.7 +1.2 1211 4.9 MLLT1 CEBPG ZNF24 ZNF384 ZNF644 IKZF1 CEBPA GATAD2A ZSCAN4 PKNOX1 RUNX1-IT1 GC21P034943 RUNX1
GH21J035040 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 0.4 -7.2 -7198 11.8 ZNF652 SP1 ZFX CC2D1A ELF3 CTCF CBFA2T2 MLLT1 CEBPG GTF2F1 RUNX1 RUNX1-IT1 GC21M035098
GH21J035024 Promoter/Enhancer 1.7 Ensembl ENCODE dbSUPER 0.4 +11.8 11783 6.6 ZFX CC2D1A ELF3 ZKSCAN8 CBFA2T2 ZNF148 MLLT1 CEBPG GTF2F1 CSDE1 RUNX1-IT1 GC21P034943 RUNX1
GH21J035018 Enhancer 1.4 FANTOM5 ENCODE dbSUPER 0.4 +19.4 19404 2.6 ZNF652 CEBPG RERE AHR SP1 HNF1A PPARG ZNF644 KAT8 RXRA RUNX1 RUNX1-IT1 GC21P034943
GH21J035023 Enhancer 1 ENCODE dbSUPER 0.4 +16.0 15982 0.6 TFE3 HNF1A PPARG SP5 ZNF644 KAT8 HMG20B GATAD2A RXRB IRF2 RUNX1-IT1 GC21P034943 RUNX1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RUNX1-IT1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for RUNX1-IT1 Gene

Genomic Locations for RUNX1-IT1 Gene
1,502 bases
Minus strand
1,502 bases
Minus strand

Genomic View for RUNX1-IT1 Gene

Genes around RUNX1-IT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RUNX1-IT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RUNX1-IT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RUNX1-IT1 Gene

Proteins for RUNX1-IT1 Gene

Post-translational modifications for RUNX1-IT1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for RUNX1-IT1 Gene

Domains & Families for RUNX1-IT1 Gene

Graphical View of Domain Structure for InterPro Entry

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for RUNX1-IT1 Gene

Function for RUNX1-IT1 Gene

Phenotypes From GWAS Catalog for RUNX1-IT1 Gene

genes like me logo Genes that share phenotypes with RUNX1-IT1: view

Animal Model Products

CRISPR Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for RUNX1-IT1 Gene

Localization for RUNX1-IT1 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 RUNX1-IT1 Gene

Pathways & Interactions for RUNX1-IT1 Gene

PathCards logo

SuperPathways for RUNX1-IT1 Gene

No Data Available

Interacting Proteins for RUNX1-IT1 Gene

Gene Ontology (GO) - Biological Process for RUNX1-IT1 Gene


No data available for Pathways by source and SIGNOR curated interactions for RUNX1-IT1 Gene

Drugs & Compounds for RUNX1-IT1 Gene

No Compound Related Data Available

Transcripts for RUNX1-IT1 Gene

mRNA/cDNA for RUNX1-IT1 Gene

(1) REFSEQ mRNAs :
(3) Additional mRNA sequences :
(3) Selected AceView cDNA sequences:
(1) RNA Central transcripts :

Unigene Clusters for RUNX1-IT1 Gene

RUNX1 intronic transcript 1 (non-protein coding):
Representative Sequences:

CRISPR Products

Alternative Splicing Database (ASD) splice patterns (SP) for RUNX1-IT1 Gene

No ASD Table

Relevant External Links for RUNX1-IT1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for RUNX1-IT1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RUNX1-IT1 Gene

SOURCE GeneReport for Unigene cluster for RUNX1-IT1 Gene:

genes like me logo Genes that share expression patterns with RUNX1-IT1: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , 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 RUNX1-IT1 Gene

Orthologs for RUNX1-IT1 Gene

No data available for Orthologs and Evolution for RUNX1-IT1 Gene

Paralogs for RUNX1-IT1 Gene

No data available for Paralogs for RUNX1-IT1 Gene

Variants for RUNX1-IT1 Gene

Sequence variations from dbSNP and Humsavar for RUNX1-IT1 Gene

SNP ID Clin Chr 21 pos Variation AA Info Type
rs1000029636 -- 35,041,408(-) T/C upstream_transcript_variant
rs1003156859 -- 35,040,331(-) C/G upstream_transcript_variant
rs1003515575 -- 35,039,985(-) T/C upstream_transcript_variant
rs1003645542 -- 35,039,264(-) C/T non_coding_transcript_variant
rs1003881885 -- 35,038,877(-) T/C non_coding_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for RUNX1-IT1 Gene

Variant ID Type Subtype PubMed ID
esv34068 CNV loss 18971310
nsv1059864 CNV loss 25217958
nsv1065948 CNV gain 25217958
nsv482991 CNV gain 15286789

Additional Variant Information for RUNX1-IT1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for RUNX1-IT1 Gene

Disorders for RUNX1-IT1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for RUNX1-IT1 Gene - From: LncRNADisease and DISEASES

Disorder Aliases PubMed IDs
gastric cancer
  • gastric cancer, somatic
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for RUNX1-IT1

genes like me logo Genes that share disorders with RUNX1-IT1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RUNX1-IT1 Gene

Publications for RUNX1-IT1 Gene

  1. Cell array-based intracellular localization screening reveals novel functional features of human chromosome 21 proteins. (PMID: 16780588) Hu YH … Janitz M (BMC genomics 2006) 3 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 58
  3. 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
  4. The DNA sequence of human chromosome 21. (PMID: 10830953) Hattori M … Chromosome 21 mapping and sequencing consortium (Nature 2000) 3 58

Products for RUNX1-IT1 Gene

Sources for RUNX1-IT1 Gene

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