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Aliases for VPS9D1-AS1 Gene

Subcategory (RNA class) for VPS9D1-AS1 Gene

non-coding RNA

Quality Score for this RNA gene is

3

Aliases for VPS9D1-AS1 Gene

  • VPS9D1 Antisense RNA 1 2 3 5
  • C-Myc-Upregulated LncRNA 3
  • MYU 3

External Ids for VPS9D1-AS1 Gene

Previous GeneCards Identifiers for VPS9D1-AS1 Gene

  • GC16P089778

Summaries for VPS9D1-AS1 Gene

GeneCards Summary for VPS9D1-AS1 Gene

VPS9D1-AS1 (VPS9D1 Antisense RNA 1) is an RNA Gene, and is affiliated with the non-coding RNA class.

No data available for Entrez Gene Summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for VPS9D1-AS1 Gene

Genomics for VPS9D1-AS1 Gene

Regulatory Elements for VPS9D1-AS1 Gene

Enhancers for VPS9D1-AS1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH16F089717 1.1 ENCODE 15.5 +9.2 9198 7.5 PKNOX1 ARNT CREB3L1 MLX ZFP64 ARID4B SIN3A DMAP1 YY1 ZNF143 CDK10 VPS9D1 DBNDD1 VPS9D1-AS1 AFG3L1P TUBB3 ENSG00000259877 FAM157C FANCA ENSG00000261172
GH16F088766 1.8 FANTOM5 Ensembl ENCODE 4.5 -940.9 -940905 9.1 HDGF PKNOX1 ARNT CREB3L1 ZFP64 ARID4B SIN3A DMAP1 FEZF1 ZNF2 PIEZO1 APRT RNF166 VPS9D1-AS1 LOC105371416 MIR4722 LOC339059
GH16F090007 1.1 Ensembl ENCODE 5.1 +297.0 297045 2.2 KLF17 YBX1 ZNF2 RARA GLIS2 ZNF143 KLF7 EGR2 CBFB CEBPB DEF8 DBNDD1 URAHP TUBB3 CENPBD1 VPS9D1-AS1 GAS8 PIR44838
GH16F089804 0.8 ENCODE 6 +93.6 93589 1.8 BCOR ZMYM3 CEBPG ZNF48 ZNF121 POLR2A PAF1 SMARCE1 NRF1 SSRP1 SPIRE2 SPATA2L VPS9D1 ZNF276 CDK10 FANCA RPL13 VPS9D1-AS1 PIR55781
GH16F089573 1 ENCODE 4.5 -136.4 -136436 2.9 HDGF ATF1 PKNOX1 ARNT ARID4B SIN3A ZNF2 ZNF48 ZNF207 ZNF143 AFG3L1P CDK10 MC1R SPG7 ENSG00000259877 URAHP CTU2 RPL13 LOC101927863 ENSG00000268218
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around VPS9D1-AS1 on UCSC Golden Path with GeneCards custom track

Promoters for VPS9D1-AS1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000512383 344 1601 TBP HDAC1 SIN3A ZNF121 EGR1 SCRT2 ZNF362 SMAD5 ZBTB11 ZNF592

Genomic Location for VPS9D1-AS1 Gene

Chromosome:
16
Start:
89,711,856 bp from pter
End:
89,718,165 bp from pter
Size:
6,310 bases
Orientation:
Plus strand

Genomic View for VPS9D1-AS1 Gene

Genes around VPS9D1-AS1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
VPS9D1-AS1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for VPS9D1-AS1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for VPS9D1-AS1 Gene

Proteins for VPS9D1-AS1 Gene

Post-translational modifications for VPS9D1-AS1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for VPS9D1-AS1 Gene

Domains & Families for VPS9D1-AS1 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 VPS9D1-AS1 Gene

Function for VPS9D1-AS1 Gene

Animal Model Products

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 VPS9D1-AS1 Gene

Localization for VPS9D1-AS1 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Gene Ontology (GO) - Cellular Components for VPS9D1-AS1 Gene

Pathways & Interactions for VPS9D1-AS1 Gene

SuperPathways for VPS9D1-AS1 Gene

No Data Available

Interacting Proteins for VPS9D1-AS1 Gene

Gene Ontology (GO) - Biological Process for VPS9D1-AS1 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for VPS9D1-AS1 Gene

Transcripts for VPS9D1-AS1 Gene

mRNA/cDNA for VPS9D1-AS1 Gene

(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Alternative Splicing Database (ASD) splice patterns (SP) for VPS9D1-AS1 Gene

No ASD Table

Relevant External Links for VPS9D1-AS1 Gene

GeneLoc Exon Structure for
VPS9D1-AS1
ECgene alternative splicing isoforms for
VPS9D1-AS1

Expression for VPS9D1-AS1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for VPS9D1-AS1 Gene

mRNA differential expression in normal tissues according to GTEx for VPS9D1-AS1 Gene

This gene is overexpressed in Whole Blood (x5.9).
genes like me logo Genes that share expression patterns with VPS9D1-AS1: 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 and mRNA Expression by UniProt/SwissProt for VPS9D1-AS1 Gene

Orthologs for VPS9D1-AS1 Gene

Evolution for VPS9D1-AS1 Gene

ENSEMBL:
Gene Tree for VPS9D1-AS1 (if available)
TreeFam:
Gene Tree for VPS9D1-AS1 (if available)

No data available for Orthologs for VPS9D1-AS1 Gene

Paralogs for VPS9D1-AS1 Gene

No data available for Paralogs for VPS9D1-AS1 Gene

Variants for VPS9D1-AS1 Gene

Sequence variations from dbSNP and Humsavar for VPS9D1-AS1 Gene

SNP ID Clin Chr 16 pos Sequence Context AA Info Type
rs10468304 -- 89,718,113(+) ATCCT(A/T)TGTGC intron-variant, nc-transcript-variant, upstream-variant-2KB
rs111475886 -- 89,712,043(+) GAGTC(C/T)CACCT intron-variant, nc-transcript-variant
rs111488775 -- 89,712,732(+) GACAA(-/GCT)GCTGT intron-variant, nc-transcript-variant
rs111656189 -- 89,715,756(+) CTGCA(A/G)CCTCC intron-variant
rs111862340 -- 89,713,963(+) AGTCA(C/G)TCTCA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for VPS9D1-AS1 Gene

Variant ID Type Subtype PubMed ID
nsv952079 CNV deletion 24416366
nsv833330 CNV loss 17160897
nsv573743 CNV gain 21841781
nsv516241 CNV loss 19592680
nsv509639 CNV insertion 20534489
nsv482951 CNV loss 15286789
nsv457623 CNV gain 19166990
nsv428331 CNV gain+loss 18775914
nsv1931 CNV insertion 18451855
esv2762221 CNV gain+loss 21179565

Relevant External Links for VPS9D1-AS1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
VPS9D1-AS1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for VPS9D1-AS1 Gene

Disorders for VPS9D1-AS1 Gene

Relevant External Links for VPS9D1-AS1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
VPS9D1-AS1

No disorders were found for VPS9D1-AS1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for VPS9D1-AS1 Gene

Publications for VPS9D1-AS1 Gene

  1. MYU, a Target lncRNA for Wnt/c-Myc Signaling, Mediates Induction of CDK6 to Promote Cell Cycle Progression. (PMID: 27568568) Kawasaki Y. … Akiyama T. (Cell Rep 2016) 3 64
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 64
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3 64

Products for VPS9D1-AS1 Gene

Sources for VPS9D1-AS1 Gene

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