Aliases for LOC401040 Gene

Aliases for LOC401040 Gene

  • Uncharacterized LOC401040 3 5
  • Uncharacterized Protein LOC401040 3
  • Lnc-TWIST2-5 165
  • AC079612.1 5

External Ids for LOC401040 Gene

Summaries for LOC401040 Gene

GeneCards Summary for LOC401040 Gene

LOC401040 (Uncharacterized LOC401040) is a Protein Coding gene.

Additional gene information for LOC401040 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 LOC401040 Gene

Genomics for LOC401040 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LOC401040 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
GH02J239579 Enhancer 0.5 Ensembl 250.7 +1.6 1600 1.4 SMAD4 RARA EZH2 NR2F6 HNRNPL LOC401040 TWIST2 HSALNG0023521 NDUFA10
GH02J239576 Enhancer 0.3 Ensembl dbSUPER 250.7 -0.8 -843 0.7 LOC401040 lnc-HDAC4-5 HDAC4
GH02J239601 Enhancer 0.9 Ensembl ENCODE dbSUPER 13.1 +27.1 27099 9.2 ZNF623 MAFF SPI1 MAX EZH2 CEBPB MAFK CEBPG LOC401040 HSALNG0023521 ENSG00000227459 NDUFA10
GH02J239622 Promoter/Enhancer 0.9 Ensembl ENCODE dbSUPER 11.3 +46.8 46848 5.3 CEBPB ZBTB40 CREB1 ENSG00000227459 LOC401040 HSALNG0023521 NDUFA10
GH02J239716 Enhancer 0.9 Ensembl ENCODE CraniofacialAtlas 11.2 +139.3 139280 2.4 PLRG1 BCL6 TCF7L2 RCOR1 SOX6 TRIM22 PHB2 CREB1 NR2F2 LOC401040 HSALNG0023528 HSALNG0023529 NDUFA10
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LOC401040 on the GeneHancer Hub at the UCSC Golden Path

Genomic Locations for LOC401040 Gene

Latest Assembly
chr2:239,578,301-239,586,094
(GRCh38/hg38)
Size:
7,794 bases
Orientation:
Plus strand

Previous Assembly
chr2:240,499,995-240,507,788
(GRCh37/hg19 by Ensembl)
Size:
7,794 bases
Orientation:
Plus strand

Genomic View for LOC401040 Gene

Genes around LOC401040 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LOC401040 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LOC401040 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LOC401040 Gene

Proteins for LOC401040 Gene

Post-translational modifications for LOC401040 Gene

No Post-translational modifications

Other Protein References for LOC401040 Gene

REFSEQ proteins:

No data available for DME Specific Peptides for LOC401040 Gene

Domains & Families for LOC401040 Gene

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LOC401040 Gene

Function for LOC401040 Gene

Phenotypes From GWAS Catalog for LOC401040 Gene

Phenotypes for LOC401040 Gene

GenomeRNAi human phenotypes for LOC401040:
genes like me logo Genes that share phenotypes with LOC401040: view

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 LOC401040 Gene

Localization for LOC401040 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 LOC401040 Gene

Pathways & Interactions for LOC401040 Gene

PathCards logo

SuperPathways for LOC401040 Gene

No Data Available

Interacting Proteins for LOC401040 Gene

Gene Ontology (GO) - Biological Process for LOC401040 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LOC401040 Gene

Drugs & Compounds for LOC401040 Gene

No Compound Related Data Available

Transcripts for LOC401040 Gene

mRNA/cDNA for LOC401040 Gene

1 REFSEQ mRNAs :
3 NCBI additional mRNA sequence :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
1 RNACentral transcripts :
1 LNCipedia transcripts :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LOC401040

Alternative Splicing Database (ASD) splice patterns (SP) for LOC401040 Gene

No ASD Table

Relevant External Links for LOC401040 Gene

GeneLoc Exon Structure for
LOC401040

Expression for LOC401040 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LOC401040 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LOC401040

genes like me logo Genes that share expression patterns with LOC401040: view

Primer products for research

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 LOC401040 Gene

Orthologs for LOC401040 Gene

This gene was present in the common ancestor of human and chimp.

Orthologs for LOC401040 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia -- 31
  • 95 (a)
OneToOne
Species where no ortholog for LOC401040 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • Chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • Cow (Bos Taurus)
  • Dog (Canis familiaris)
  • 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)
  • Mouse (Mus musculus)
  • Oppossum (Monodelphis domestica)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rat (Rattus norvegicus)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (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 LOC401040 Gene

ENSEMBL:
Gene Tree for LOC401040 (if available)
TreeFam:
Gene Tree for LOC401040 (if available)

Paralogs for LOC401040 Gene

No data available for Paralogs for LOC401040 Gene

Variants for LOC401040 Gene

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for LOC401040 Gene

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

Variation tolerance for LOC401040 Gene

Gene Damage Index Score: 6.49; 77.54% of all genes are more intolerant (likely to be disease-causing)

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP , Structural Variations from Database of Genomic Variants (DGV) and Additional Variant Information for LOC401040 Gene

Disorders for LOC401040 Gene

Additional Disease Information for LOC401040

Open Targets Platform
Open Targets Platform

No disorders were found for LOC401040 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LOC401040 Gene

Publications for LOC401040 Gene

  1. 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

No data available for Mastermind for LOC401040 Gene

Products for LOC401040 Gene

Sources for LOC401040 Gene