Aliases for RFPL1S Gene

Data sources for RFPL1S Gene:

Subcategory (RNA class) for RFPL1S Gene

lncRNA

Aliases for RFPL1S Gene

External Ids for RFPL1S Gene

Previous HGNC Symbols for RFPL1S Gene

  • RFPL1-AS1

Previous GeneCards Identifiers for RFPL1S Gene

  • GC22U990065
  • GC22M028163
  • GC22M029833

Summaries for RFPL1S Gene

GeneCards Summary for RFPL1S Gene

RFPL1S (RFPL1 Antisense RNA 1) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with RFPL1S include Retinitis Pigmentosa 6.

Additional gene information for RFPL1S 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 RFPL1S Gene

Genomics for RFPL1S Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for RFPL1S 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
GH22J029477 Promoter/Enhancer 1.1 EPDnew Ensembl 258.2 +0.9 867 2.4 MNT SIN3A REST VEZF1 SP2 ZFP91 ZNF316 NFE2 HDAC2 ZBTB48 RFPL1S NEFH NIPSNAP1 THOC5 LOC107985541 piR-52788 RFPL1 L13304-023
GH22J029441 Promoter 0.3 EPDnew 250.3 +37.2 37205 0.1 RFPL1S FJ601684-298 RFPL4AP6 NEFH RFPL1 L13304-023
GH22J028798 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 15.4 +678.6 678583 7.8 TBP ZBTB10 SP1 MXD4 CEBPA MNT IKZF1 SMAD5 POLR2A BHLHE40 ZNRF3 XBP1 ENSG00000272858 EWSR1 RFPL1S NF2 RASL10A TTC28 CHEK2 CCDC117
GH22J028740 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 15.4 +736.8 736768 3.4 TBP ZBTB10 MXD4 SP1 FEZF1 SIX5 MNT IKZF1 SMAD5 ETS1 CHEK2 HSCB NONHSAG033620.2 KREMEN1 EWSR1 CCDC117 RFPL1S NF2 RASL10A NEFH
GH22J029600 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 15.5 -124.5 -124517 4.8 CHD2 TBP ZBTB10 SP1 FEZF1 NR2C1 SMAD5 MBD2 POLR2A BRCA1 NF2 lnc-NEFH-1 lnc-NIPSNAP1-4 EWSR1 SF3A1 THOC5 RFPL1S RASL10A NEFH NIPSNAP1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RFPL1S on the GeneHancer Hub at the UCSC Golden Path

Top Transcription factor binding sites by QIAGEN in the RFPL1S gene promoter:
  • E47
  • En-1
  • GCNF
  • GCNF-1
  • GCNF-2
  • Hand1
  • RFX1
  • ZID

Genomic Locations for RFPL1S Gene

Latest Assembly
chr22:29,436,533-29,478,868
(GRCh38/hg38)
Size:
42,336 bases
Orientation:
Minus strand

Previous Assembly
chr22:29,833,004-29,838,118
(GRCh37/hg19 by Entrez Gene)
Size:
5,115 bases
Orientation:
Minus strand

chr22:29,832,818-29,874,164
(GRCh37/hg19 by Ensembl)
Size:
41,347 bases
Orientation:
Minus strand

Genomic View for RFPL1S Gene

Genes around RFPL1S on UCSC Golden Path with GeneCards custom track
RFPL1S in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Cytogenetic band:
RFPL1S Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RFPL1S Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RFPL1S Gene

Proteins for RFPL1S Gene

Post-translational modifications for RFPL1S Gene

No Post-translational modifications

No data available for DME Specific Peptides for RFPL1S Gene

Domains & Families for RFPL1S Gene

Gene Families for RFPL1S Gene

Suggested Antigen Peptide Sequences for RFPL1S Gene

GenScript: Design optimal peptide antigens:
  • RFPL1 antisense RNA 1 (RFL1S_HUMAN)
genes like me logo Genes that share domains with RFPL1S: view

No data available for Protein Domains , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for RFPL1S Gene

Function for RFPL1S Gene

Molecular function for RFPL1S Gene

GENATLAS Biochemistry:
ret finger protein-like 1,antisense transcript,overlapping RFRL1

Phenotypes From GWAS Catalog for RFPL1S Gene

genes like me logo Genes that share phenotypes with RFPL1S: view

CRISPR products for research

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for RFPL1S Gene

Localization for RFPL1S Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for RFPL1S gene
Compartment Confidence
peroxisome 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for RFPL1S Gene

Pathways & Interactions for RFPL1S Gene

PathCards logo

SuperPathways for RFPL1S Gene

No Data Available

Gene Ontology (GO) - Biological Process for RFPL1S Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for RFPL1S Gene

Drugs & Compounds for RFPL1S Gene

No Compound Related Data Available

Transcripts for RFPL1S Gene

Non-coding RNA (ncRNA) Transcripts from RNAcentral for RFPL1S Gene

RNAcentral Transcript ID Subcategory Length (nts) # of Sources Source Identifiers and Annotations
URS00005FCF98_9606 lncRNA 570 3

Ensembl: ENST00000419368 (view in UCSC) ,

LNCipedia: RFPL1S:6,

NONCODE: NONHSAT084709.2,

URS0000811B84_9606 lncRNA 5906 2

Ensembl: ENST00000461286 (view in UCSC) ,

LNCipedia: RFPL1S:3,

URS000075AF51_9606 lncRNA 5115 1

RefSeq: NR_002727,

URS0000EF1643_9606 lncRNA 1931 1

Ensembl: ENST00000657516 (view in UCSC) ,

URS0000EEC3FA_9606 lncRNA 1636 1

Ensembl: ENST00000661328 (view in UCSC) ,

RFPL1S in the GeneCaRNA (GeneCards ncRNA compendium) hub on the UCSC Golden Path

Additional transcripts not in RNAcentral for RFPL1S Gene

5 NCBI additional mRNA sequence :

Alternative Splicing Database (ASD) splice patterns (SP) for RFPL1S Gene

No ASD Table

Relevant External Links for RFPL1S Gene

GeneLoc Exon Structure for
RFPL1S

Expression for RFPL1S Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for RFPL1S Gene

mRNA differential expression in normal tissues according to GTEx for RFPL1S Gene

This gene is overexpressed in Brain - Frontal Cortex (BA9) (x8.0), Brain - Anterior cingulate cortex (BA24) (x6.4), Brain - Cortex (x6.3), Brain - Hippocampus (x4.5), Brain - Amygdala (x4.4), Brain - Putamen (basal ganglia) (x4.1), and Brain - Nucleus accumbens (basal ganglia) (x4.0).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for RFPL1S

SOURCE GeneReport for Unigene cluster for RFPL1S Gene:

Hs.167750
genes like me logo Genes that share expression patterns with RFPL1S: view

Primer products for research

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 RFPL1S Gene

Orthologs for RFPL1S Gene

Evolution for RFPL1S Gene

ENSEMBL:
Gene Tree for RFPL1S (if available)
TreeFam:
Gene Tree for RFPL1S (if available)

No data available for Orthologs for RFPL1S Gene

Paralogs for RFPL1S Gene

No data available for Paralogs for RFPL1S Gene

Variants for RFPL1S Gene

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for RFPL1S Gene

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

Structural Variations from Database of Genomic Variants (DGV) for RFPL1S Gene

Variant ID Type Subtype PubMed ID
nsv1059994 CNV gain 25217958
nsv1060197 CNV gain 25217958
nsv1110864 OTHER inversion 24896259
nsv964618 CNV duplication 23825009
nsv979667 CNV duplication 23825009

Additional Variant Information for RFPL1S Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RFPL1S

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 and Variation tolerance for RFPL1S Gene

Disorders for RFPL1S Gene

MalaCards: The human disease database

(1) MalaCards diseases for RFPL1S Gene - From: COP

Disorder Aliases PubMed IDs
retinitis pigmentosa 6
  • rp6
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for RFPL1S

genes like me logo Genes that share disorders with RFPL1S: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RFPL1S Gene

Publications for RFPL1S Gene

  1. Duplications on human chromosome 22 reveal a novel Ret Finger Protein-like gene family with sense and endogenous antisense transcripts. (PMID: 10508838) Seroussi E … Dumanski JP (Genome research 1999) 2 3 23
  2. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K … Sugano S (Genome research 2006) 3
  3. A genome annotation-driven approach to cloning the human ORFeome. (PMID: 15461802) Collins JE … Dunham I (Genome biology 2004) 3
  4. 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

Products for RFPL1S Gene

Sources for RFPL1S Gene