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Aliases for LINC00474 Gene

Subcategory (RNA class) for LINC00474 Gene

non-coding RNA

Quality Score for this RNA gene is

13

Aliases for LINC00474 Gene

  • Long Intergenic Non-Protein Coding RNA 474 2 3 5
  • C9orf27 3 4
  • Putative Uncharacterized Protein Encoded By LINC00474 4
  • Chromosome 9 Open Reading Frame 27 2
  • Protein EST-YD1 4
  • EST-YD1 3

External Ids for LINC00474 Gene

Previous HGNC Symbols for LINC00474 Gene

  • C9orf27

Previous GeneCards Identifiers for LINC00474 Gene

  • GC09M118651

Summaries for LINC00474 Gene

GeneCards Summary for LINC00474 Gene

LINC00474 (Long Intergenic Non-Protein Coding RNA 474) is an RNA Gene, and is affiliated with the non-coding RNA class.

Additional gene information for LINC00474 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 LINC00474 Gene

Genomics for LINC00474 Gene

GeneHancer (GH) Regulatory Elements for LINC00474 Gene

Promoters and enhancers for LINC00474 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
GH09J115921 Enhancer 1.2 Ensembl ENCODE dbSUPER 600.7 +1.5 1479 4.4 MAFK ELF1 SP1 CEBPG RXRA REST FOXA2 BRCA1 CEBPB CHD2 LINC00474 PIR33501
GH09J115938 Promoter/Enhancer 2.2 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 0.4 -17.7 -17717 9 ELF3 MNT CEBPG RERE MAFK TFE3 ELF1 SP1 PPARG SP5 PAPPA LINC00474 LOC105376236
GH09J115952 Enhancer 1.1 Ensembl ENCODE dbSUPER 0.3 -27.7 -27688 1.4 SP1 SMARCC1 CEBPB CHD2 JUN RCOR1 JUND FOS EP300 PRDM1 LINC00474 LOC105376236
GH09J115883 Enhancer 0.6 ENCODE 0.3 +41.3 41270 0.2 CTCF RAD21 SP1 DEK SMC3 ZSCAN9 RFX5 ZNF654 ZNF143 FOXA3 LINC00474 PIR33501
GH09J115851 Enhancer 0.7 FANTOM5 Ensembl ENCODE 0.2 +74.6 74614 1.6 FOS LINC00474 PIR33501
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LINC00474 on UCSC Golden Path with GeneCards custom track

Genomic Locations for LINC00474 Gene

Genomic Locations for LINC00474 Gene
chr9:115,888,169-115,925,207
(GRCh38/hg38)
Size:
37,039 bases
Orientation:
Minus strand
chr9:118,650,448-118,687,486
(GRCh37/hg19)
Size:
37,039 bases
Orientation:
Minus strand

Genomic View for LINC00474 Gene

Genes around LINC00474 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LINC00474 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINC00474 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINC00474 Gene

Proteins for LINC00474 Gene

  • Protein details for LINC00474 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9P2X8-CI027_HUMAN
    Recommended name:
    Putative uncharacterized protein encoded by LINC00474
    Protein Accession:
    Q9P2X8
    Secondary Accessions:
    • Q08EI2

    Protein attributes for LINC00474 Gene

    Size:
    69 amino acids
    Molecular mass:
    7854 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAA96243.1; Type=Frameshift; Positions=63; Evidence={ECO:0000305};

neXtProt entry for LINC00474 Gene

Post-translational modifications for LINC00474 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LINC00474 Gene

Domains & Families for LINC00474 Gene

Protein Domains for LINC00474 Gene

ProtoNet:

Suggested Antigen Peptide Sequences for LINC00474 Gene

GenScript: Design optimal peptide antigens:
  • Protein EST-YD1 (CI027_HUMAN)

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LINC00474: view

No data available for Gene Families and UniProtKB/Swiss-Prot for LINC00474 Gene

Function for LINC00474 Gene

Phenotypes From GWAS Catalog for LINC00474 Gene

Gene Ontology (GO) - Molecular Function for LINC00474 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
genes like me logo Genes that share ontologies with LINC00474: view
genes like me logo Genes that share phenotypes with LINC00474: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LINC00474

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for LINC00474 Gene

Localization for LINC00474 Gene

Gene Ontology (GO) - Cellular Components for LINC00474 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005575 cellular_component ND --
genes like me logo Genes that share ontologies with LINC00474: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Subcellular locations from the Human Protein Atlas (HPA) for LINC00474 Gene

Pathways & Interactions for LINC00474 Gene

PathCards logo

SuperPathways for LINC00474 Gene

No Data Available

Interacting Proteins for LINC00474 Gene

Gene Ontology (GO) - Biological Process for LINC00474 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008150 biological_process ND --
genes like me logo Genes that share ontologies with LINC00474: view

No data available for Pathways by source and SIGNOR curated interactions for LINC00474 Gene

Drugs & Compounds for LINC00474 Gene

No Compound Related Data Available

Transcripts for LINC00474 Gene

mRNA/cDNA for LINC00474 Gene

(9) Additional mRNA sequences :
(10) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
(2) RNA Central transcripts :

Unigene Clusters for LINC00474 Gene

Long intergenic non-protein coding RNA 474:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LINC00474

Alternative Splicing Database (ASD) splice patterns (SP) for LINC00474 Gene

No ASD Table

Relevant External Links for LINC00474 Gene

GeneLoc Exon Structure for
LINC00474
ECgene alternative splicing isoforms for
LINC00474

Expression for LINC00474 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LINC00474 Gene

mRNA differential expression in normal tissues according to GTEx for LINC00474 Gene

This gene is overexpressed in Testis (x47.1) and Minor Salivary Gland (x5.9).

NURSA nuclear receptor signaling pathways regulating expression of LINC00474 Gene:

LINC00474

SOURCE GeneReport for Unigene cluster for LINC00474 Gene:

Hs.23367
genes like me logo Genes that share expression patterns with LINC00474: view

Primer Products

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 LINC00474 Gene

Orthologs for LINC00474 Gene

Evolution for LINC00474 Gene

ENSEMBL:
Gene Tree for LINC00474 (if available)
TreeFam:
Gene Tree for LINC00474 (if available)

No data available for Orthologs for LINC00474 Gene

Paralogs for LINC00474 Gene

No data available for Paralogs for LINC00474 Gene

Variants for LINC00474 Gene

Sequence variations from dbSNP and Humsavar for LINC00474 Gene

SNP ID Clin Chr 09 pos Variation AA Info Type
rs1000036502 -- 115,917,753(-) A/G intron_variant
rs1000067011 -- 115,902,677(-) G/C/T intron_variant
rs1000090516 -- 115,908,959(-) G/A intron_variant
rs1000136897 -- 115,923,605(-) A/T intron_variant
rs1000140517 -- 115,904,103(-) A/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for LINC00474 Gene

Variant ID Type Subtype PubMed ID
esv3891718 CNV loss 25118596
nsv1050714 CNV gain 25217958
nsv7434 OTHER inversion 18451855
nsv831700 CNV gain 17160897

Additional Variant Information for LINC00474 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINC00474

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for LINC00474 Gene

Disorders for LINC00474 Gene

Additional Disease Information for LINC00474

No disorders were found for LINC00474 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LINC00474 Gene

Publications for LINC00474 Gene

  1. Significant differences in the frequency of transcriptional units, types and numbers of repetitive elements, GC content, and the number of CpG islands between a 1010-kb G-band genomic segment on chromosome 9q31.3 and a 1200-kb R-band genomic segment on chromosome 3p21.3. (PMID: 10492169) Daigo Y … Nakamura Y (DNA research : an international journal for rapid publication of reports on genes and genomes 1999) 3 4 58
  2. Genome-wide association study combining pathway analysis for typical sporadic amyotrophic lateral sclerosis in Chinese Han populations. (PMID: 24529757) Xie T … Xu R (Neurobiology of aging 2014) 3 58
  3. Follow-up association studies of chromosome region 9q and nonsyndromic cleft lip/palate. (PMID: 20583170) Letra A … Vieira AR (American journal of medical genetics. Part A 2010) 3 58
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 4 58
  5. 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

Products for LINC00474 Gene

Sources for LINC00474 Gene

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