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FERD3L Gene(Protein Coding)

Fer3 Like BHLH Transcription Factor

GCID:
GC07M019184
GIFtS:
45
Genes Participants
UDN Logo

Aliases for FERD3L Gene

Aliases for FERD3L Gene

  • Fer3 Like BHLH Transcription Factor 2 3 5
  • Class A Basic Helix-Loop-Helix Protein 31 3 4
  • Basic Helix-Loop-Helix Protein N-Twist 3 4
  • Nephew Of Atonal 3 3 4
  • Neuronal Twist 3 4
  • BHLHa31 3 4
  • NTWIST 3 4
  • NATO3 3 4
  • Pancreas-Specific Transcription Factor B 3
  • Fer3-Like BHLH Transcription Factor 2
  • Fer3-Like (Drosophila) 2
  • Fer3-Like Protein 3
  • N-TWIST 3
  • PTFB 3

External Ids for FERD3L Gene

Previous GeneCards Identifiers for FERD3L Gene

  • GC07M018828
  • GC07M018928
  • GC07M018957
  • GC07M019150

Summaries for FERD3L Gene

GeneCards Summary for FERD3L Gene

FERD3L (Fer3 Like BHLH Transcription Factor) is a Protein Coding gene. GO annotations related to this gene include protein dimerization activity. An important paralog of this gene is PTF1A.

UniProtKB/Swiss-Prot for FERD3L Gene

  • Transcription factor that binds to the E-box and functions as inhibitor of transcription. DNA binding requires dimerization with an E protein. Inhibits transcription activation by ASCL1/MASH1 by sequestering E proteins (By similarity).

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for FERD3L Gene

Genomics for FERD3L Gene

Products:

  1. Regulatory Element

Regulatory Elements for FERD3L Gene

Enhancers for FERD3L 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
GH07G019104 2.1 VISTA FANTOM5 Ensembl ENCODE dbSUPER 36.2 +33.2 33209 16.4 PKNOX1 ZSCAN4 SIN3A RAD21 GLIS2 ZNF366 SCRT2 EGR2 ZNF263 SP3 FERD3L ENSG00000229533 TWIST1 LOC105375174 GC07M019093
GH07G019146 0.5 FANTOM5 39.4 -1.5 -1462 0.1 MIER2 REST FERD3L TWIST1 GC07P019308
GH07G019403 0.9 Ensembl ENCODE 10.2 -259.7 -259701 2.5 JUN BHLHE40 GFI1B CEBPB EP300 JUND ZFHX2 PRDM6 ZBTB48 SCRT2 FERD3L ENSG00000229533 LOC105375179 GC07P019514
GH07G019078 0.8 ENCODE 10.7 +65.9 65863 2.7 CTCF SUZ12 SIN3A RBBP5 CEBPG RAD21 ZNF335 GLIS2 PATZ1 ZNF350 TWIST1 ENSG00000236536 ENSG00000229533 FERD3L GC07M019093 GC07P018997
GH07G019100 0.7 ENCODE dbSUPER 11.1 +43.3 43304 3.2 JUND CBX2 EZH2 FERD3L ENSG00000229533 GC07M019093 LOC105375174
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around FERD3L on UCSC Golden Path with GeneCards custom track

Transcription factor binding sites by QIAGEN in the FERD3L gene promoter:

Genomic Location for FERD3L Gene

Chromosome:
7
Start:
19,144,782 bp from pter
End:
19,145,421 bp from pter
Size:
640 bases
Orientation:
Minus strand

Genomic View for FERD3L Gene

Genes around FERD3L on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
FERD3L Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for FERD3L Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for FERD3L Gene

Proteins for FERD3L Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for FERD3L Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96RJ6-FER3L_HUMAN
    Recommended name:
    Fer3-like protein
    Protein Accession:
    Q96RJ6
    Secondary Accessions:
    • Q495K0

    Protein attributes for FERD3L Gene

    Size:
    166 amino acids
    Molecular mass:
    19017 Da
    Quaternary structure:
    • Heterodimer with TCF3/E12. Interacts with the bHLH domain of TCF3/E12 (By similarity).

neXtProt entry for FERD3L Gene

Post-translational modifications for FERD3L Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for FERD3L Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for FERD3L Gene

Domains & Families for FERD3L Gene

Gene Families for FERD3L Gene

HGNC:

Protein Domains for FERD3L Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for FERD3L Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with FERD3L: view

No data available for UniProtKB/Swiss-Prot for FERD3L Gene

Function for FERD3L Gene

Products:

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

Molecular function for FERD3L Gene

UniProtKB/Swiss-Prot Function:
Transcription factor that binds to the E-box and functions as inhibitor of transcription. DNA binding requires dimerization with an E protein. Inhibits transcription activation by ASCL1/MASH1 by sequestering E proteins (By similarity).

Gene Ontology (GO) - Molecular Function for FERD3L Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000977 RNA polymerase II regulatory region sequence-specific DNA binding IEA --
GO:0001227 transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding IEA --
GO:0003677 DNA binding IEA --
GO:0005515 protein binding IPI 25416956
GO:0046983 protein dimerization activity IEA --
genes like me logo Genes that share ontologies with FERD3L: view
genes like me logo Genes that share phenotypes with FERD3L: view

Animal Models for FERD3L Gene

MGI Knock Outs for FERD3L:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for FERD3L Gene

Localization for FERD3L Gene

Subcellular locations from UniProtKB/Swiss-Prot for FERD3L 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 FERD3L gene
Compartment Confidence
nucleus 5
plasma membrane 1
extracellular 1
mitochondrion 1
peroxisome 1
cytosol 1

Gene Ontology (GO) - Cellular Components for FERD3L Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus ISS --
genes like me logo Genes that share ontologies with FERD3L: view

Pathways & Interactions for FERD3L Gene

SuperPathways for FERD3L Gene

PathCards logo More details on SuperPathways for FERD3L
No Data Available

Gene Ontology (GO) - Biological Process for FERD3L Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter IEA --
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0033504 floor plate development IEA --
GO:0045892 negative regulation of transcription, DNA-templated ISS,IEA --
genes like me logo Genes that share ontologies with FERD3L: view

No data available for Pathways by source and SIGNOR curated interactions for FERD3L Gene

Drugs & Compounds for FERD3L Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for FERD3L Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone
  5. Flow Cytometry

mRNA/cDNA for FERD3L Gene

(1) REFSEQ mRNAs :
(5) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

CRISPR Products

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for FERD3L Gene

No ASD Table

Relevant External Links for FERD3L Gene

GeneLoc Exon Structure for
FERD3L
ECgene alternative splicing isoforms for
FERD3L

Expression for FERD3L Gene

Products:

  1. Primer

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for FERD3L Gene

mRNA expression in normal human tissues for FERD3L Gene
mRNA expression by BioGPS for FERD3L GenemRNA expression by GTEx for FERD3L Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for FERD3L Gene

This gene is overexpressed in Brain - Hypothalamus (x5.6), Brain - Substantia nigra (x5.1), and Brain - Frontal Cortex (BA9) (x4.4).

NURSA nuclear receptor signaling pathways regulating expression of FERD3L Gene:

FERD3L

SOURCE GeneReport for Unigene cluster for FERD3L Gene:

Hs.592168
genes like me logo Genes that share expression patterns with FERD3L: view

Primer Products

No data available for 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 FERD3L Gene

Orthologs for FERD3L Gene

This gene was present in the common ancestor of animals.

Orthologs for FERD3L Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia FERD3L 34 35
  • 99.4 (n)
cow
(Bos Taurus)
 Mammalia FERD3L 34 35
  • 84.37 (n)
dog
(Canis familiaris)
 Mammalia FERD3L 34 35
  • 83.73 (n)
mouse
(Mus musculus)
 Mammalia Ferd3l 34 16 35
  • 78.59 (n)
rat
(Rattus norvegicus)
 Mammalia Ferd3l 34
  • 78.12 (n)
platypus
(Ornithorhynchus anatinus)
 Mammalia FERD3L 35
  • 72 (a)
 OneToOne
oppossum
(Monodelphis domestica)
 Mammalia FERD3L 35
  • 66 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves FERD3L 34 35
  • 69.91 (n)
lizard
(Anolis carolinensis)
 Reptilia FERD3L 35
  • 81 (a)
 OneToOne
zebrafish
(Danio rerio)
 Actinopterygii ferd3l 35
  • 73 (a)
 OneToOne
fruit fly
(Drosophila melanogaster)
 Insecta Fer3 35
  • 32 (a)
 OneToOne
worm
(Caenorhabditis elegans)
 Secernentea hlh-13 35
  • 26 (a)
 OneToMany
Species where no ortholog for FERD3L was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for FERD3L Gene

ENSEMBL:
Gene Tree for FERD3L (if available)
TreeFam:
Gene Tree for FERD3L (if available)

Paralogs for FERD3L Gene

Paralogs for FERD3L Gene

(6) SIMAP similar genes for FERD3L Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with FERD3L: view

Variants for FERD3L Gene

Sequence variations from dbSNP and Humsavar for FERD3L Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type
rs775679607 A colorectal cancer sample 19,145,257(+) GACCC(A/C/T)GGGTG reference, missense
rs1000926523 -- 19,144,932(+) CAGGC(-/GGA)GGAGG cds-indel
rs1002546721 -- 19,146,562(+) GGGAG(A/T)TTTTG upstream-variant-2KB
rs1002597405 -- 19,146,757(+) AAAGA(A/C)CCATT upstream-variant-2KB
rs1004948516 -- 19,145,616(+) CTCCA(C/G)TTCTG upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for FERD3L Gene

Variant ID Type Subtype PubMed ID
nsv1022118 CNV gain 25217958

Variation tolerance for FERD3L Gene

Residual Variation Intolerance Score: 24.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.01; 84.20% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for FERD3L Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
FERD3L

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for FERD3L Gene

Disorders for FERD3L Gene

Relevant External Links for FERD3L

Genetic Association Database (GAD)
FERD3L
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
FERD3L

No disorders were found for FERD3L Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for FERD3L Gene

Publications for FERD3L Gene

  1. N-twist, an evolutionarily conserved bHLH protein expressed in the developing CNS, functions as a transcriptional inhibitor. (PMID: 12217327) Verzi M.P. … Black B.L. (Dev. Biol. 2002) 2 3 4 64
  2. Nato3 is an evolutionarily conserved bHLH transcription factor expressed in the CNS of Drosophila and mouse. (PMID: 11472856) Segev E. … Ben-Arie N. (Mech. Dev. 2001) 2 3 4 64
  3. Human chromosome 7: DNA sequence and biology. (PMID: 12690205) Scherer S.W. … Tsui L.-C. (Science 2003) 3 4 64
  4. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T. … Vidal M. (Cell 2014) 3 64
  5. Integrated genome-wide association, coexpression network, and expression single nucleotide polymorphism analysis identifies novel pathway in allergic rhinitis. (PMID: 25085501) Bunyavanich S. … Weiss S.T. (BMC Med Genomics 2014) 3 64

Products for FERD3L Gene

Sources for FERD3L Gene

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