LOC654780 Gene (RNA Gene)

Splicing Factor Proline/Glutamine-Rich

GC16M084193
GIFtS:
14
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Aliases for LOC654780 Gene

Subcategory (RNA class) for LOC654780 Gene

lncRNA

Number of RNA Genes sources:

3 / 17

Aliases for LOC654780 Gene

  • Splicing Factor Proline/Glutamine-Rich 3
  • Novel Transcript, Antisense To ADAD2 5
  • NONHSAG020153.2 91
  • HSALNG0113112 164
  • Lnc-TAF1C-1 165
  • AC009123.1 5
  • SFPQ 3

External Ids for LOC654780 Gene

Previous GeneCards Identifiers for LOC654780 Gene

  • GC16M082784
  • GC16M084227
  • GC16U902322

Summaries for LOC654780 Gene

GeneCards Summary for LOC654780 Gene

LOC654780 (Splicing Factor Proline/Glutamine-Rich) is an RNA Gene, and is affiliated with the lncRNA class.

Additional gene information for LOC654780 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 LOC654780 Gene

Genomics for LOC654780 Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for LOC654780 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
GH16J084196 Enhancer 0.5 Ensembl CraniofacialAtlas 612.4 +0.2 152 1 FOXA1 DPF2 LOC654780 ADAD2 KCNG4
GH16J084195 Enhancer 0.3 Ensembl 620 +1.1 1052 0.4 MNT LOC654780 ADAD2 KCNG4
GH16J084183 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 17.4 +11.4 11412 4.1 HNRNPL CREB1 GATAD2A CTCF ZBTB33 TFE3 NFKBIZ POLR2A RCOR2 BACH1 TAF1C lnc-KCNG4-3 lnc-KCNG4-4 LOC654780 ADAD2 HSDL1 DNAAF1
GH16J084193 Promoter/Enhancer 0.8 Ensembl ENCODE 19.6 +2.8 2806 1.5 CTCF POLR2A SMARCA4 RAD21 LOC654780 ADAD2 TAF1C KCNG4
GH16J083968 Promoter/Enhancer 1.9 EPDnew Ensembl CraniofacialAtlas dbSUPER 5.5 +228.5 228454 1.2 CTCF TARDBP MTA2 PKNOX1 MTA1 PATZ1 REST GATAD2B ZNF792 ZNF140 NECAB2 TAF1C ENSG00000261243 KLHL36 MBTPS1 CRISPLD2 MEAK7 ENSG00000260859 HSDL1 LOC654780
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LOC654780 on the GeneHancer Hub at the UCSC Golden Path

Top Transcription factor binding sites by QIAGEN in the LOC654780 gene promoter:
  • AREB6
  • COMP1
  • E47
  • FOXO1
  • FOXO1a
  • NF-kappaB
  • NF-kappaB1
  • NF-kappaB2
  • Olf-1
  • Pax-5

Genomic Locations for LOC654780 Gene

Genomic Locations for LOC654780 Gene
chr16:84,192,558-84,197,053
(GRCh38/hg38)
Size:
4,496 bases
Orientation:
Minus strand
chr16:84,226,164-84,230,659
(GRCh37/hg19)
Size:
4,496 bases
Orientation:
Minus strand

Genomic View for LOC654780 Gene

Genes around LOC654780 on UCSC Golden Path with GeneCards custom track
LOC654780 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Cytogenetic band:
LOC654780 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LOC654780 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for LOC654780 Gene

Proteins for LOC654780 Gene

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  1. Antibody
  2. Protein
  3. Assay

Post-translational modifications for LOC654780 Gene

No Post-translational modifications

No data available for DME Specific Peptides for LOC654780 Gene

Domains & Families for LOC654780 Gene

No data available for Gene Families , Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LOC654780 Gene

Function for LOC654780 Gene

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  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LOC654780

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LOC654780 Gene

Localization for LOC654780 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 LOC654780 Gene

Pathways & Interactions for LOC654780 Gene

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SuperPathways for LOC654780 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LOC654780 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for LOC654780 Gene

Drugs & Compounds for LOC654780 Gene

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  1. Drug
No Compound Related Data Available

Transcripts for LOC654780 Gene

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  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

Non-coding RNA (ncRNA) Transcripts from RNAcentral for LOC654780 Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS0000057625_9606 lncRNA 2551 4

RefSeq: NR_147175,

Ensembl: ENST00000565643 (view in UCSC) ,

LNCipedia: lnc-TAF1C-1:2,

NONCODE: NONHSAT144053.2,

URS00004A4622_9606 lncRNA 575 4

Ensembl: ENST00000569834 (view in UCSC) ,

LncBook: HSALNT0234477,

LNCipedia: lnc-TAF1C-1:3,

NONCODE: NONHSAT144055.2,

URS0000036FE3_9606 lncRNA 453 4

Ensembl: ENST00000561900 (view in UCSC) ,

LncBook: HSALNT0234473,

LNCipedia: lnc-TAF1C-1:4,

NONCODE: NONHSAT144054.2,

URS00001741FD_9606 lncRNA 2689 3

Ensembl: ENST00000536986 (view in UCSC) ,

LNCipedia: lnc-TAF1C-1:1,

NONCODE: NONHSAT144052.2,

LOC654780 in the GeneCards ncRNA compendium hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for LOC654780 Gene

1 REFSEQ mRNAs :
3 NCBI additional mRNA sequence :

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LOC654780

Alternative Splicing Database (ASD) splice patterns (SP) for LOC654780 Gene

No ASD Table

Relevant External Links for LOC654780 Gene

GeneLoc Exon Structure for
LOC654780

Expression for LOC654780 Gene

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  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LOC654780 Gene

mRNA expression in normal human tissues for LOC654780 Gene

mRNA differential expression in normal tissues according to GTEx for LOC654780 Gene

This gene is overexpressed in Testis (x25.7) and Esophagus - Mucosa (x4.9).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LOC654780

SOURCE GeneReport for Unigene cluster for LOC654780 Gene:

Hs.614079
genes like me logo Genes that share expression patterns with LOC654780: 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 LOC654780 Gene

Orthologs for LOC654780 Gene

Evolution for LOC654780 Gene

ENSEMBL:
Gene Tree for LOC654780 (if available)
TreeFam:
Gene Tree for LOC654780 (if available)

No data available for Orthologs for LOC654780 Gene

Paralogs for LOC654780 Gene

No data available for Paralogs for LOC654780 Gene

Variants for LOC654780 Gene

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  1. SNP Genotyping and Copy Number Assay

Additional dbSNP identifiers (rs#s) for LOC654780 Gene

Additional Variant Information for LOC654780 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LOC654780

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 Variation tolerance for LOC654780 Gene

Disorders for LOC654780 Gene

Additional Disease Information for LOC654780

Open Targets Platform

No disorders were found for LOC654780 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LOC654780 Gene

Publications for LOC654780 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3

No data available for Mastermind for LOC654780 Gene

Products for LOC654780 Gene

Sources for LOC654780 Gene