Aliases for LOC642846 Gene

Subcategory (RNA class) for LOC642846 Gene

lncRNA

Quality Score for this RNA gene is

14

Aliases for LOC642846 Gene

  • DEAD/H (Asp-Glu-Ala-Asp/His) Box Polypeptide 11-Like 3
  • NONHSAG010438 94
  • HSALNG0089135 169
  • Lnc-KLRG1-6 170

External Ids for LOC642846 Gene

Previous GeneCards Identifiers for LOC642846 Gene

  • GC12P009329
  • GC12P009437

Summaries for LOC642846 Gene

GeneCards Summary for LOC642846 Gene

LOC642846 (DEAD/H (Asp-Glu-Ala-Asp/His) Box Polypeptide 11-Like) is an RNA Gene, and is affiliated with the lncRNA class.

Additional gene information for LOC642846 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 LOC642846 Gene

Genomics for LOC642846 Gene

GeneHancer (GH) Regulatory Elements for LOC642846 Gene

Promoters and enhancers for LOC642846 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
GH12J009283 Promoter/Enhancer 1.2 ENCODE CraniofacialAtlas 750.6 +0.4 370 2 SP1 ZBTB40 NFYC L3MBTL2 POLR2A NKRF GTF2F1 MLLT1 SP7 PRDM1 LOC642846 ENSG00000111788 A2MP1 DDX12P LINC02367 ENSG00000212440 LINC00987
GH12J009313 Enhancer 0.3 Ensembl 0.3 +29.8 29844 1 NFIB NFIC piR-34276-001 DDX12P ENSG00000111788 lnc-PZP-9 LOC642846
GH12J009309 Enhancer 0.3 Ensembl 0.3 +26.1 26090 0.7 NR2F1 lnc-PZP-9 piR-34276-001 LOC642846 ENSG00000111788
GH12J009291 Enhancer 0.2 Ensembl 0.4 +7.8 7844 1 ENSG00000212440 LOC642846 piR-54416-001 ENSG00000111788
GH12J009294 Enhancer 0.2 Ensembl 0.4 +9.6 9644 0.6 ENSG00000255753 ENSG00000256673 piR-54416-001 ENSG00000212440 LOC642846 ENSG00000111788
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LOC642846 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the LOC642846 gene promoter:
  • COUP
  • COUP-TF
  • COUP-TF1
  • CP2
  • HNF-3beta
  • HNF-4alpha1
  • HNF-4alpha2
  • Lhx3a
  • LHX3b
  • Pax-3

Genomic Locations for LOC642846 Gene

Genomic Locations for LOC642846 Gene
chr12:9,283,657-9,314,088
(GRCh38/hg38)
Size:
30,432 bases
Orientation:
Plus strand
chr12:9,429,831-9,466,684
(GRCh37/hg19)
Size:
36,854 bases
Orientation:
Plus strand

Genomic View for LOC642846 Gene

Genes around LOC642846 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LOC642846 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LOC642846 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LOC642846 Gene

Proteins for LOC642846 Gene

Post-translational modifications for LOC642846 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LOC642846 Gene

Domains & Families for LOC642846 Gene

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LOC642846 Gene

Function for LOC642846 Gene

Phenotypes From GWAS Catalog for LOC642846 Gene

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 LOC642846 Gene

Localization for LOC642846 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 LOC642846 Gene

Pathways & Interactions for LOC642846 Gene

PathCards logo

SuperPathways for LOC642846 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LOC642846 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LOC642846 Gene

Drugs & Compounds for LOC642846 Gene

No Compound Related Data Available

Transcripts for LOC642846 Gene

mRNA/cDNA for LOC642846 Gene

(1) REFSEQ mRNAs :
(6) Additional mRNA sequences :
(4) RNACentral transcripts :
(3) LNCipedia transcripts :
(2) NONCODE transcripts :
(2) LncBook transcripts :

Alternative Splicing Database (ASD) splice patterns (SP) for LOC642846 Gene

No ASD Table

Relevant External Links for LOC642846 Gene

GeneLoc Exon Structure for
LOC642846

Expression for LOC642846 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LOC642846 Gene

SOURCE GeneReport for Unigene cluster for LOC642846 Gene:

Hs.447869
genes like me logo Genes that share expression patterns with LOC642846: view

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 LOC642846 Gene

Orthologs for LOC642846 Gene

No data available for Orthologs and Evolution for LOC642846 Gene

Paralogs for LOC642846 Gene

No data available for Paralogs for LOC642846 Gene

Variants for LOC642846 Gene

Sequence variations from dbSNP and Humsavar for LOC642846 Gene

SNP ID Clin Chr 12 pos Variation AA Info Type
rs1000131893 -- 9,313,417(+) A/G non_coding_transcript_variant
rs1000238764 -- 9,290,024(+) T/C intron_variant
rs1000502253 -- 9,313,042(+) T/C intron_variant
rs1000843879 -- 9,297,198(+) G/C intron_variant
rs1000950958 -- 9,308,048(+) G/A intron_variant

Structural Variations from Database of Genomic Variants (DGV) for LOC642846 Gene

Variant ID Type Subtype PubMed ID
dgv761n106 OTHER inversion 24896259
esv2759878 CNV gain+loss 17122850
esv3580605 CNV gain 25503493
esv3628495 CNV loss 21293372
esv3628496 CNV gain 21293372
nsv1050161 CNV loss 25217958
nsv1051530 CNV gain 25217958
nsv1118226 CNV deletion 24896259
nsv1118501 CNV duplication 24896259
nsv1141208 CNV duplication 24896259
nsv1150838 CNV duplication 26484159
nsv523958 CNV loss 19592680
nsv557355 CNV gain 21841781
nsv7228 OTHER inversion 18451855
nsv975441 CNV duplication 23825009
nsv983274 CNV duplication 23825009

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Variation tolerance and Additional Variant Information for LOC642846 Gene

Disorders for LOC642846 Gene

No disorders were found for LOC642846 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot , Genatlas and External Links for LOC642846 Gene

Publications for LOC642846 Gene

  1. Genetic variants associated with breast size also influence breast cancer risk. (PMID: 22747683) Eriksson N … Tung JY (BMC medical genetics 2012) 3 56
  2. Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population. (PMID: 23251661) Comuzzie AG … Butte NF (PloS one 2012) 3 56
  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 56

No data available for External Links for LOC642846 Gene

Products for LOC642846 Gene

Sources for LOC642846 Gene