Aliases for WARS2-IT1 Gene

Data sources for WARS2-IT1 Gene:

RNA type for WARS2-IT1 Gene

lncRNA

Aliases for WARS2-IT1 Gene

External Ids for WARS2-IT1 Gene

Previous GeneCards Identifiers for WARS2-IT1 Gene

  • GC00U933489
  • GC01M119591
  • GC01P119590

Summaries for WARS2-IT1 Gene

GeneCards Summary for WARS2-IT1 Gene

WARS2-IT1 (WARS2 Intronic Transcript 1) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with WARS2-IT1 include Prostate Cancer and Neurodevelopmental Disorder, Mitochondrial, With Abnormal Movements And Lactic Acidosis, With Or Without Seizures.

Additional gene information for WARS2-IT1 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for WARS2-IT1 Gene

Genomics for WARS2-IT1 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for WARS2-IT1 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
GH01J119046 Promoter/Enhancer 0.8 EPDnew Ensembl ENCODE 250.7 +0.1 108 1.6 MEIS2 WARS2-IT1 WARS2 lnc-TBX15-2 TBX15
GH01J119047 Enhancer 0.2 Ensembl 250.7 -1.0 -992 0.2 WARS2-IT1 piR-57926 TBX15 WARS2
GH01J119069 Enhancer 0.5 Ensembl 0.4 +21.4 21408 0.2 NFIC GATA2 ARID1B CBFA2T2 CBFA2T3 HDAC1 lnc-TBX15-2 HSALNG0006465 WARS2-IT1 HSALNG0006464 lnc-TBX15-4 WARS2 TBX15
GH01J119070 Enhancer 0.5 Ensembl 0.4 +21.8 21808 0.2 ZNF398 GATA2 ARID1B CBFA2T2 HDAC1 lnc-TBX15-2 HSALNG0006465 WARS2-IT1 lnc-TBX15-4 HSALNG0006464 WARS2 TBX15
GH01J119079 Enhancer 0.5 ENCODE 0.3 +33.5 33501 1.9 ZNF600 JUND ZIC2 ZNF189 GLIS1 EP300 ZFHX2 HSALNG0006465 lnc-TBX15-2 WARS2-IT1 lnc-TBX15-4 HSALNG0006464 WARS2 TBX15
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around WARS2-IT1 on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for WARS2-IT1 Gene

Latest Assembly
chr1:119,047,093-119,115,006
(GRCh38/hg38)
Size:
67,914 bases
Orientation:
Plus strand

Previous Assembly
chr1:119,590,028-119,605,910
(GRCh37/hg19 by Entrez Gene)
Size:
15,883 bases
Orientation:
Plus strand

chr1:119,590,028-119,607,408
(GRCh37/hg19 by Ensembl)
Size:
17,381 bases
Orientation:
Plus strand

Genomic View for WARS2-IT1 Gene

Genes around WARS2-IT1 on UCSC Golden Path with GeneCards custom track
WARS2-IT1 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Cytogenetic band:
WARS2-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 WARS2-IT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for WARS2-IT1 Gene

Proteins for WARS2-IT1 Gene

Post-translational modifications for WARS2-IT1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for WARS2-IT1 Gene

Domains & Families for WARS2-IT1 Gene

Gene Families for WARS2-IT1 Gene

genes like me logo Genes that share domains with WARS2-IT1: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for WARS2-IT1 Gene

Function for WARS2-IT1 Gene

Phenotypes From GWAS Catalog for WARS2-IT1 Gene

CRISPR products for research

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 WARS2-IT1 Gene

Localization for WARS2-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 WARS2-IT1 Gene

Pathways & Interactions for WARS2-IT1 Gene

PathCards logo

SuperPathways for WARS2-IT1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for WARS2-IT1 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for WARS2-IT1 Gene

Drugs & Compounds for WARS2-IT1 Gene

No Compound Related Data Available

Transcripts for WARS2-IT1 Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for WARS2-IT1 Gene

RNAcentral Transcript ID RNA Type Length (nts) # of Sources Source Identifiers and Annotations
URS00003D7FD0_9606 lncRNA 2060 4

Ensembl: ENST00000423984 (view in UCSC) ,

LncBook: HSALNT0013526,

LNCipedia: WARS2-IT1:1,

NONCODE: NONHSAT005521.2,

URS00007E3A4D_9606 lncRNA 562 3

RefSeq: NR_126447,

LncBook: HSALNT0013527,

LNCipedia: WARS2-IT1:2,

URS0001BE2839_9606 lncRNA 2060 1

LncBook: HSALNT0013526,

URS0001BE8411_9606 lncRNA 1115 1

LncBook: HSALNT0013524,

URS0001BDD573_9606 lncRNA 562 1

LncBook: HSALNT0013527,

WARS2-IT1 in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for WARS2-IT1 Gene

1 NCBI additional mRNA sequence :

Alternative Splicing Database (ASD) splice patterns (SP) for WARS2-IT1 Gene

No ASD Table

Relevant External Links for WARS2-IT1 Gene

GeneLoc Exon Structure for
WARS2-IT1

Expression for WARS2-IT1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for WARS2-IT1 Gene

mRNA differential expression in normal tissues according to GTEx for WARS2-IT1 Gene

This gene is overexpressed in Heart - Atrial Appendage (x7.9).
genes like me logo Genes that share expression patterns with WARS2-IT1: view

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 WARS2-IT1 Gene

Orthologs for WARS2-IT1 Gene

Evolution for WARS2-IT1 Gene

ENSEMBL:
Gene Tree for WARS2-IT1 (if available)
TreeFam:
Gene Tree for WARS2-IT1 (if available)
Alliance of Genome Resources:
Additional Orthologs for WARS2-IT1

No data available for Orthologs for WARS2-IT1 Gene

Paralogs for WARS2-IT1 Gene

No data available for Paralogs for WARS2-IT1 Gene

Variants for WARS2-IT1 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for WARS2-IT1 Gene

SNP ID Clinical significance and condition Chr 01 pos Variation AA Info Type
976754 Pathogenic: Neurodevelopmental disorder, mitochondrial, with abnormal movements and lactic acidosis, with or without seizures 119,049,232(+) TGTCTGGGGCAGTCGG
NM_015836.4(WARS2):c.91-8725_349-3571del
SPLICE_ACCEPTOR_VARIANT,SPLICE_DONOR_VARIANT,INITIATIOR_CODON_VARIANT,INTRON

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for WARS2-IT1 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Additional Variant Information for WARS2-IT1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
WARS2-IT1
Leiden Open Variation Database (LOVD)
WARS2-IT1

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Structural Variations from Database of Genomic Variants (DGV) and Variation tolerance for WARS2-IT1 Gene

Disorders for WARS2-IT1 Gene

MalaCards: The human disease database

(2) MalaCards diseases for WARS2-IT1 Gene - From: LNC and GCD

- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for WARS2-IT1

genes like me logo Genes that share disorders with WARS2-IT1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for WARS2-IT1 Gene

Publications for WARS2-IT1 Gene

  1. The mitotic regulator Hec1 is a critical modulator of prostate cancer through the long non-coding RNA BX647187 in vitro. (PMID: 26612002) Wang H … Sun Y (Bioscience reports 2015) 72
  2. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K … Sugano S (Genome research 2006) 3

Products for WARS2-IT1 Gene

Sources for WARS2-IT1 Gene