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Aliases for RLF Gene

Aliases for RLF Gene

  • Rearranged L-Myc Fusion 2 3 5
  • Rearranged L-Myc Fusion Gene Protein 3 4
  • Rearranged L-Myc Fusion Sequence 2 3
  • Zn-15-Related Protein 3 4
  • Zinc Finger Protein Rlf 3
  • Zn-15 Related 3
  • ZNF292L 3
  • ZN-15L 3

External Ids for RLF Gene

Previous GeneCards Identifiers for RLF Gene

  • GC01P040661
  • GC01P039630
  • GC01P040090
  • GC01P040040
  • GC01P040296
  • GC01P040399
  • GC01P040627
  • GC01P038745

Summaries for RLF Gene

GeneCards Summary for RLF Gene

RLF (Rearranged L-Myc Fusion) is a Protein Coding gene. Diseases associated with RLF include Left Ventricular Noncompaction. An important paralog of this gene is ZNF292.

UniProtKB/Swiss-Prot for RLF Gene

  • May be involved in transcriptional regulation.

Gene Wiki entry for RLF Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RLF Gene

Genomics for RLF Gene

Regulatory Elements for RLF Gene

Enhancers for RLF 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
GH01F040379 1.9 FANTOM5 Ensembl ENCODE 23.1 +231.1 231110 26.7 CREB3L1 FEZF1 DMAP1 YY1 ZNF143 SP3 NFYC TBX21 MEF2D SSRP1 SMAP2 RLF PPIEL ENSG00000231296 ZMPSTE24 LOC101929901 EXO5 LOC105378672 LOC101929516 ENSG00000259943
GH01F040140 1.2 FANTOM5 Ensembl ENCODE 29.7 -20.8 -20807 0.7 HLF CEBPB CEBPG GATAD2B EP300 CTBP1 JUND GATA3 MTA1 ATF3 RLF ZFP69B COL9A2 PPT1 ZMPSTE24 ENSG00000231296 TMCO2 CAP1 GC01M040138 GC01P040133
GH01F040708 1.4 FANTOM5 ENCODE 10.7 +549.9 549870 6.1 PKNOX1 ARNT WRNIP1 ARID4B SIN3A FEZF1 DMAP1 YY1 SLC30A9 ZNF143 RIMS3 LOC105378674 EXO5 MIR30E MIR30C1 RLF LOC101929901 ZFP69 NFYC KCNQ4
GH01F040859 1.4 Ensembl ENCODE 10.7 +703.6 703636 11.5 HDGF PKNOX1 ARNT CREB3L1 ARID4B SIN3A YY1 ZNF548 FOS KLF13 EXO5 RLF CITED4 ENSG00000259943 ENSG00000229528 PIR44205
GH01F040241 1.3 Ensembl ENCODE 10.9 +81.2 81185 2.9 HDGF PKNOX1 ATF1 CREB3L1 SIN3A ARID4B YY1 SLC30A9 ZNF143 ZNF548 PPT1 ENSG00000231296 EXO5 COL9A2 RLF SMAP2 LOC101929516 GC01P040244 GC01M040241
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RLF on UCSC Golden Path with GeneCards custom track

Promoters for RLF Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000535053 532 2600 HDGF ARNT CREB3L1 WRNIP1 ARID4B SIN3A DMAP1 YY1 ZNF207 FOS

Genomic Location for RLF Gene

Chromosome:
1
Start:
40,161,369 bp from pter
End:
40,240,921 bp from pter
Size:
79,553 bases
Orientation:
Plus strand

Genomic View for RLF Gene

Genes around RLF on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for RLF Gene

Proteins for RLF Gene

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

    Protein Symbol:
    Q13129-RLF_HUMAN
    Recommended name:
    Zinc finger protein Rlf
    Protein Accession:
    Q13129
    Secondary Accessions:
    • Q14CQ1
    • Q9NU60

    Protein attributes for RLF Gene

    Size:
    1914 amino acids
    Molecular mass:
    217953 Da
    Quaternary structure:
    • Interacts with RIT1 and RIT2.
    Miscellaneous:
    • In some small cell lung carcinoma (SCLC) cell lines, there is an intrachromosomal rearrangements at 1p32 fusing the first exon of the RLF gene with L-myc.

neXtProt entry for RLF Gene

Post-translational modifications for RLF Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RLF Gene

No data available for DME Specific Peptides for RLF Gene

Domains & Families for RLF Gene

Gene Families for RLF Gene

Protein Domains for RLF Gene

Suggested Antigen Peptide Sequences for RLF Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q13129

UniProtKB/Swiss-Prot:

RLF_HUMAN :
  • Belongs to the krueppel C2H2-type zinc-finger protein family.
  • Contains 14 C2H2-type zinc fingers.
Family:
  • Belongs to the krueppel C2H2-type zinc-finger protein family.
Similarity:
  • Contains 14 C2H2-type zinc fingers.
genes like me logo Genes that share domains with RLF: view

Function for RLF Gene

Molecular function for RLF Gene

GENATLAS Biochemistry:
rearranged l-myc fusion gene,in small cell lung carcinoma
UniProtKB/Swiss-Prot Function:
May be involved in transcriptional regulation.

Gene Ontology (GO) - Molecular Function for RLF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding NAS 8545128
GO:0005515 protein binding IPI 10545207
GO:0008270 zinc ion binding TAS 8545128
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with RLF: view
genes like me logo Genes that share phenotypes with RLF: view

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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

Localization for RLF Gene

Subcellular locations from UniProtKB/Swiss-Prot for RLF Gene

Nucleus.

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 RLF gene
Compartment Confidence
nucleus 5

Gene Ontology (GO) - Cellular Components for RLF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IC 8545128
genes like me logo Genes that share ontologies with RLF: view

Pathways & Interactions for RLF Gene

No Data Available

Gene Ontology (GO) - Biological Process for RLF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated NAS 8545128
GO:0015074 DNA integration IDA 1851085
GO:0044030 regulation of DNA methylation IEA --
GO:0045893 positive regulation of transcription, DNA-templated ISS 8545128
genes like me logo Genes that share ontologies with RLF: view

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

Transcripts for RLF Gene

mRNA/cDNA for RLF Gene

Unigene Clusters for RLF Gene

Rearranged L-myc fusion:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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

No ASD Table

Relevant External Links for RLF Gene

GeneLoc Exon Structure for
RLF
ECgene alternative splicing isoforms for
RLF

Expression for RLF Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for RLF Gene

This gene is overexpressed in Breast (41.0), Platelet (12.7), and Gallbladder (8.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for RLF Gene



Protein tissue co-expression partners for RLF Gene

NURSA nuclear receptor signaling pathways regulating expression of RLF Gene:

RLF

SOURCE GeneReport for Unigene cluster for RLF Gene:

Hs.205627

mRNA Expression by UniProt/SwissProt for RLF Gene:

Q13129-RLF_HUMAN
Tissue specificity: Widely expressed in fetal and adult tissues.
genes like me logo Genes that share expression patterns with RLF: view

Primer Products

No data available for mRNA differential expression in normal tissues for RLF Gene

Orthologs for RLF Gene

This gene was present in the common ancestor of chordates.

Orthologs for RLF Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RLF 34 35
  • 99.6 (n)
dog
(Canis familiaris)
Mammalia RLF 34 35
  • 94.16 (n)
cow
(Bos Taurus)
Mammalia RLF 34 35
  • 92.76 (n)
rat
(Rattus norvegicus)
Mammalia Rlf 34
  • 87.52 (n)
mouse
(Mus musculus)
Mammalia Rlf 34 16 35
  • 87.43 (n)
oppossum
(Monodelphis domestica)
Mammalia RLF 35
  • 75 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RLF 35
  • 65 (a)
OneToOne
chicken
(Gallus gallus)
Aves RLF 34 35
  • 69.52 (n)
lizard
(Anolis carolinensis)
Reptilia RLF 35
  • 56 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rlf 34
  • 59.36 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.30567 34
zebrafish
(Danio rerio)
Actinopterygii rlf 34 35
  • 51.9 (n)
Species where no ortholog for RLF was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for RLF Gene

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

Paralogs for RLF Gene

Paralogs for RLF Gene

(1) SIMAP similar genes for RLF Gene using alignment to 1 proteins:

Pseudogenes.org Pseudogenes for RLF Gene

genes like me logo Genes that share paralogs with RLF: view

Variants for RLF Gene

Sequence variations from dbSNP and Humsavar for RLF Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs1044737 -- 40,239,339(+) TGAGC(A/T)CACAC reference, missense
rs1044738 -- 40,239,341(+) AGCAC(A/T)CACAG reference, missense
rs1044739 -- 40,239,343(+) CACAC(A/T)CAGTA reference, synonymous-codon
rs1044740 -- 40,239,345(+) CACAC(A/T)GTACC reference, missense
rs10493088 -- 40,218,888(-) ATCAA(C/T)TATGT intron-variant

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

Variant ID Type Subtype PubMed ID
esv2673542 CNV deletion 23128226
nsv950676 CNV duplication 24416366
nsv947427 CNV duplication 23825009
nsv829660 CNV gain+loss 17160897
nsv521874 CNV loss 19592680
nsv1119679 CNV deletion 24896259
esv2758933 CNV loss 17122850
esv2747352 CNV deletion 23290073

Variation tolerance for RLF Gene

Residual Variation Intolerance Score: 22.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.19; 75.98% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RLF Gene

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

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RLF Gene

Disorders for RLF Gene

MalaCards: The human disease database

(1) MalaCards diseases for RLF Gene - From: DISEASES

Disorder Aliases PubMed IDs
left ventricular noncompaction
  • left ventricular hypertrabeculation
- elite association - COSMIC cancer census association via MalaCards
Search RLF in MalaCards View complete list of genes associated with diseases

Relevant External Links for RLF

Genetic Association Database (GAD)
RLF
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RLF
genes like me logo Genes that share disorders with RLF: view

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

Publications for RLF Gene

  1. The rearranged L-myc fusion gene (RLF) encodes a Zn-15 related zinc finger protein. (PMID: 8545128) Makela T.P. … Alitalo K. (Oncogene 1995) 3 4 22 64
  2. Intrachromosomal rearrangements fusing L-myc and rlf in small-cell lung cancer. (PMID: 1649386) MAokelAo T.P. … Alitalo K. (Mol. Cell. Biol. 1991) 2 3 22 64
  3. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory S.G. … Bentley D.R. (Nature 2006) 3 4 64
  4. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen J.V. … Mann M. (Cell 2006) 3 4 64
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64

Products for RLF Gene

Sources for RLF Gene

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