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FLRT1 Gene(Protein Coding)

Fibronectin Leucine Rich Transmembrane Protein 1

GCID:
GC11P064036
GIFtS:
56
Genes Participants
UDN Logo

Aliases for FLRT1 Gene

Aliases for FLRT1 Gene

  • Fibronectin Leucine Rich Transmembrane Protein 1 2 3 5
  • Fibronectin-Like Domain-Containing Leucine-Rich Transmembrane Protein 1 3 4
  • Leucine-Rich Repeat Transmembrane Protein FLRT1 3
  • SPG68 3

External Ids for FLRT1 Gene

Previous GeneCards Identifiers for FLRT1 Gene

  • GC11M066466
  • GC11M065550
  • GC11P064122
  • GC11P063646
  • GC11P063627
  • GC11P063871
  • GC11P060200

Summaries for FLRT1 Gene

Entrez Gene Summary for FLRT1 Gene

  • This gene encodes a member of the fibronectin leucine rich transmembrane protein (FLRT) family. The family members may function in cell adhesion and/or receptor signalling. Their protein structures resemble small leucine-rich proteoglycans found in the extracellular matrix. The encoded protein shares sequence similarity with two other family members, FLRT2 and FLRT3. This gene is expressed in kidney and brain. [provided by RefSeq, Jul 2008]

GeneCards Summary for FLRT1 Gene

FLRT1 (Fibronectin Leucine Rich Transmembrane Protein 1) is a Protein Coding gene. Diseases associated with FLRT1 include Autosomal Recessive Spastic Paraplegia Type 68. Among its related pathways are Signaling by FGFR2 and Signaling by GPCR. GO annotations related to this gene include protein binding, bridging and signal transducer activity, downstream of receptor. An important paralog of this gene is FLRT3.

UniProtKB/Swiss-Prot for FLRT1 Gene

  • Plays a role in fibroblast growth factor-mediated signaling cascades that lead to the activation of MAP kinases. Promotes neurite outgrowth via FGFR1-mediated activation of downstream MAP kinases. Promotes an increase both in neurite number and in neurite length. May play a role in cell-cell adhesion and cell guidance via its interaction with ADGRL1/LPHN1 and ADGRL3.

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for FLRT1 Gene

Genomics for FLRT1 Gene

Products:

  1. Regulatory Element

Regulatory Elements for FLRT1 Gene

Enhancers for FLRT1 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
GH11G064069 1.2 ENCODE dbSUPER 12 +34.5 34480 1.3 HDGF PKNOX1 ARID4B SIN3A ELK1 ZNF143 DEK ZNF263 JUNB REST FLRT1 ENSG00000256341 ENSG00000257086 ENSG00000256481 PIR44183
GH11G064072 1.1 ENCODE dbSUPER 12 +36.3 36329 0.0 HDGF DEAF1 ZBTB40 GLIS2 ZNF366 EGR1 ETV6 RELB IKZF2 EGR2 FLRT1 ENSG00000256341 ENSG00000256481 PIR44183
GH11G064152 1.2 Ensembl ENCODE 11 +117.6 117583 1.7 ARID4B DMAP1 ZNF143 DEK SP3 NFYC REST SSRP1 MIER3 ETV4 TRMT112 TRPT1 STIP1 ENSG00000256341 FLRT1 ENSG00000256100 COX8A RNU6-45P ENSG00000256481 FERMT3
GH11G064120 1.5 Ensembl ENCODE dbSUPER 8.3 +86.3 86295 3.1 HDGF ARID4B SIN3A DMAP1 ZNF48 SLC30A9 ELK1 FOS KDM4B SP5 TRMT112 TRPT1 FLRT1 ENSG00000256341 PIR54353 GC11M064153
GH11G064131 0.9 ENCODE dbSUPER 11.7 +96.2 96160 0.5 SOX13 REST ZIC2 FOXA1 ZNF664 TBX3 GATA3 ZNF341 ZKSCAN8 PATZ1 TRPT1 FLRT1 MACROD1 ENSG00000256481 ENSG00000256341 GC11M064153 PIR54353
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around FLRT1 on UCSC Golden Path with GeneCards custom track

Promoters for FLRT1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000040606 330 601 ATF1 PKNOX1 ZEB1 ZNF335 GLIS2 ZNF366 FOS SP3 USF2 ZEB2

Transcription factor binding sites by QIAGEN in the FLRT1 gene promoter:

Genomic Location for FLRT1 Gene

Chromosome:
11
Start:
64,035,970 bp from pter
End:
64,119,183 bp from pter
Size:
83,214 bases
Orientation:
Plus strand

Genomic View for FLRT1 Gene

Genes around FLRT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
FLRT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for FLRT1 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for FLRT1 Gene

Proteins for FLRT1 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for FLRT1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NZU1-FLRT1_HUMAN
    Recommended name:
    Leucine-rich repeat transmembrane protein FLRT1
    Protein Accession:
    Q9NZU1
    Secondary Accessions:
    • Q8WVA2

    Protein attributes for FLRT1 Gene

    Size:
    646 amino acids
    Molecular mass:
    71358 Da
    Quaternary structure:
    • Interacts with FGFR1. Interacts (via extracellular domain) with ADGRL1/LPHN1 and ADGRL3 (via olfactomedin-like domain).
    SequenceCaution:
    • Sequence=AAF28459.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=AAH18370.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=AAQ88675.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAF82620.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=EAW74194.1; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for FLRT1 Gene

Protein Expression for FLRT1 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for FLRT1 Gene

  • N-glycosylated.
  • Phosphorylated in response to FGFR1 signaling, but is not a direct substrate of FGFR1 or SRC. A mutant where the Tyr phosphorylation sites have been replaced by Phe displays constitutive FGFR1-dependent activation of downstream MAP kinases.
  • Proteolytic cleavage in the juxtamembrane region gives rise to a soluble ectodomain.
  • Glycosylation at Asn221 and Asn277
  • Modification sites at PhosphoSitePlus

Other Protein References for FLRT1 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • Abcam antibodies for FLRT1

Protein Products

  • Abcam proteins for FLRT1

No data available for DME Specific Peptides for FLRT1 Gene

Domains & Families for FLRT1 Gene

Gene Families for FLRT1 Gene

HGNC:

Protein Domains for FLRT1 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for FLRT1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with FLRT1: view

No data available for UniProtKB/Swiss-Prot for FLRT1 Gene

Function for FLRT1 Gene

Products:

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

Molecular function for FLRT1 Gene

GENATLAS Biochemistry:
fibronectin,leucine rich transmembrane protein1,extracellular matrix protein,expressed in kidney and brain
UniProtKB/Swiss-Prot Function:
Plays a role in fibroblast growth factor-mediated signaling cascades that lead to the activation of MAP kinases. Promotes neurite outgrowth via FGFR1-mediated activation of downstream MAP kinases. Promotes an increase both in neurite number and in neurite length. May play a role in cell-cell adhesion and cell guidance via its interaction with ADGRL1/LPHN1 and ADGRL3.

Gene Ontology (GO) - Molecular Function for FLRT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004860 protein kinase inhibitor activity IBA --
GO:0005057 signal transducer activity, downstream of receptor NAS 10644439
GO:0005104 fibroblast growth factor receptor binding IEA --
GO:0030674 protein binding, bridging NAS 10644439
genes like me logo Genes that share ontologies with FLRT1: view
genes like me logo Genes that share phenotypes with FLRT1: view

Animal Models for FLRT1 Gene

MGI Knock Outs for FLRT1:

Animal Model Products

  • Taconic Biosciences Mouse Models for FLRT1

CRISPR Products

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for FLRT1 Gene

Localization for FLRT1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for FLRT1 Gene

Cell membrane; Single-pass membrane protein. Endoplasmic reticulum membrane. Cytoplasmic vesicle membrane. Cytoplasm, perinuclear region. Cell junction, focal adhesion. Secreted. Cell projection. Cell junction. Note=In addition to its location at the cell membrane, colocalizes with FGFR1 in punctate perinuclear cytoplasmic vesicles. Detected along neurites and at contacts between neurite termini and other cells. Proteolytic cleavage gives rise to a shedded ectodomain. {ECO:0000250 UniProtKB:Q6RKD8}.

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 FLRT1 gene
Compartment Confidence
plasma membrane 5
extracellular 5
endoplasmic reticulum 3
peroxisome 2
mitochondrion 1
cytosol 1
lysosome 1

Gene Ontology (GO) - Cellular Components for FLRT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005578 proteinaceous extracellular matrix NAS 10644439
GO:0005615 extracellular space IEA --
GO:0005737 cytoplasm IBA,IEA --
GO:0005783 endoplasmic reticulum IEA --
genes like me logo Genes that share ontologies with FLRT1: view

Pathways & Interactions for FLRT1 Gene

genes like me logo Genes that share pathways with FLRT1: view

Pathways by source for FLRT1 Gene

Gene Ontology (GO) - Biological Process for FLRT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006469 negative regulation of protein kinase activity IBA --
GO:0007155 cell adhesion IEA --
GO:0007275 multicellular organism development IEA --
GO:0008543 fibroblast growth factor receptor signaling pathway TAS --
GO:0016358 dendrite development ISS,IEA --
genes like me logo Genes that share ontologies with FLRT1: view

No data available for SIGNOR curated interactions for FLRT1 Gene

Drugs & Compounds for FLRT1 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for FLRT1 Gene

Products:

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

mRNA/cDNA for FLRT1 Gene

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

Unigene Clusters for FLRT1 Gene

Fibronectin leucine rich transmembrane protein 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for FLRT1 Gene

No ASD Table

Relevant External Links for FLRT1 Gene

GeneLoc Exon Structure for
FLRT1
ECgene alternative splicing isoforms for
FLRT1

Expression for FLRT1 Gene

Products:

  1. Primer

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for FLRT1 Gene

mRNA expression in normal human tissues for FLRT1 Gene
mRNA expression by BioGPS for FLRT1 GenemRNA expression by GTEx for FLRT1 Gene

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for FLRT1 Gene



NURSA nuclear receptor signaling pathways regulating expression of FLRT1 Gene:

FLRT1

SOURCE GeneReport for Unigene cluster for FLRT1 Gene:

Hs.584876

mRNA Expression by UniProt/SwissProt for FLRT1 Gene:

Q9NZU1-FLRT1_HUMAN
Tissue specificity: Expressed in kidney and brain.

Evidence on tissue expression from TISSUES for FLRT1 Gene

  • Nervous system(4.4)
genes like me logo Genes that share expression patterns with FLRT1: view

Primer Products

No data available for mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for FLRT1 Gene

Orthologs for FLRT1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for FLRT1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia FLRT1 34 35
  • 98.96 (n)
cow
(Bos Taurus)
 Mammalia FLRT1 34 35
  • 92.76 (n)
dog
(Canis familiaris)
 Mammalia FLRT1 34 35
  • 91.05 (n)
rat
(Rattus norvegicus)
 Mammalia Flrt1 34
  • 89.56 (n)
mouse
(Mus musculus)
 Mammalia Flrt1 34 16 35
  • 89.27 (n)
platypus
(Ornithorhynchus anatinus)
 Mammalia FLRT1 35
  • 83 (a)
 OneToOne
oppossum
(Monodelphis domestica)
 Mammalia -- 35
  • 22 (a)
 ManyToMany
chicken
(Gallus gallus)
 Aves -- 35
  • 23 (a)
 ManyToMany
lizard
(Anolis carolinensis)
 Reptilia FLRT1 35
  • 87 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia flrt1 34
  • 71.9 (n)
zebrafish
(Danio rerio)
 Actinopterygii flrt1a 34 35
  • 60.91 (n)
flrt1b 35
  • 57 (a)
 OneToMany
sea squirt
(Ciona savignyi)
 Ascidiacea -- 35
  • 35 (a)
 ManyToMany
-- 35
  • 33 (a)
 ManyToMany
Species where no ortholog for FLRT1 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)
  • 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 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 FLRT1 Gene

ENSEMBL:
Gene Tree for FLRT1 (if available)
TreeFam:
Gene Tree for FLRT1 (if available)

Paralogs for FLRT1 Gene

Paralogs for FLRT1 Gene

(2) SIMAP similar genes for FLRT1 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with FLRT1: view

Variants for FLRT1 Gene

Sequence variations from dbSNP and Humsavar for FLRT1 Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type
rs1000004213 -- 64,088,296(+) CCTTG(C/T)GTCAC intron-variant
rs1000042637 -- 64,076,537(+) CTGGA(A/G)ACATA intron-variant
rs1000075501 -- 64,046,752(+) CCTCA(A/T)CGTCC intron-variant
rs1000087954 -- 64,099,027(+) GGATC(A/G)TTTCT intron-variant
rs1000111039 -- 64,075,171(+) GGCAG(C/T)GCATG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for FLRT1 Gene

Variant ID Type Subtype PubMed ID
dgv15n68 CNV loss 17160897
esv2744613 CNV deletion 23290073
esv3431264 CNV duplication 20981092
nsv1078325 CNV duplication 25765185
nsv1134139 CNV deletion 24896259
nsv1141196 CNV duplication 24896259
nsv356 CNV deletion 18451855
nsv469961 CNV loss 18288195
nsv473286 CNV novel sequence insertion 20440878
nsv951010 CNV deletion 24416366

Variation tolerance for FLRT1 Gene

Residual Variation Intolerance Score: 41.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.70; 32.36% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for FLRT1 Gene

Human Gene Mutation Database (HGMD)
FLRT1
SNPedia medical, phenotypic, and genealogical associations of SNPs for
FLRT1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for FLRT1 Gene

Disorders for FLRT1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for FLRT1 Gene - From: Orphanet and GeneCards

Disorder Aliases PubMed IDs
autosomal recessive spastic paraplegia type 68
  • spg68
- elite association - COSMIC cancer census association via MalaCards
Search FLRT1 in MalaCards View complete list of genes associated with diseases

Relevant External Links for FLRT1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
FLRT1
genes like me logo Genes that share disorders with FLRT1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for FLRT1 Gene

Publications for FLRT1 Gene

  1. Identification of FLRT1, FLRT2, and FLRT3: a novel family of transmembrane leucine-rich repeat proteins. (PMID: 10644439) Lacy S.E. … Kunkel L.M. (Genomics 1999) 2 3 4 64
  2. Exome sequencing links corticospinal motor neuron disease to common neurodegenerative disorders. (PMID: 24482476) Novarino G. … Gleeson J.G. (Science 2014) 2 3 64
  3. Critical role of FLRT1 phosphorylation in the interdependent regulation of FLRT1 function and FGF receptor signalling. (PMID: 20421966) Wheldon L.M. … Heath J.K. (PLoS ONE 2010) 3 22 64
  4. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark H.F. … Gray A.M. (Genome Res. 2003) 3 4 64
  5. Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease. (PMID: 23128233) Jostins L. … Cho J.H. (Nature 2012) 3 64

Products for FLRT1 Gene

Sources for FLRT1 Gene

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