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FLRT2 fibronectin leucine rich transmembrane protein 2 [ Homo sapiens (human) ]

Gene ID: 23768, updated on 5-Aug-2018

Summary

Official Symbol
FLRT2provided by HGNC
Official Full Name
fibronectin leucine rich transmembrane protein 2provided by HGNC
Primary source
HGNC:HGNC:3761
See related
Ensembl:ENSG00000185070 MIM:604807; Vega:OTTHUMG00000171372
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This gene encodes a member of the fibronectin leucine rich transmembrane (FLRT) family of cell adhesion molecules, which regulate early embryonic vascular and neural development. The encoded type I transmembrane protein has an extracellular region consisting of an N-terminal leucine-rich repeat domain and a type 3 fibronectin domain, followed by a transmembrane domain and a short C-terminal cytoplasmic tail domain. It functions as both a homophilic cell adhesion molecule and a heterophilic chemorepellent through its interaction with members of the uncoordinated-5 receptor family. Proteolytic removal of the extracellular region controls the migration of neurons in the developing cortex. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Sep 2016]
Expression
Ubiquitous expression in ovary (RPKM 6.8), brain (RPKM 2.7) and 21 other tissues See more
Orthologs

Genomic context

See FLRT2 in Genome Data Viewer
Location:
14q31.3
Exon count:
12
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 14 NC_000014.9 (85527372..85628696)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (85996411..86095040)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 2329 Neighboring gene long intergenic non-protein coding RNA 911 Neighboring gene uncharacterized LOC100506731 Neighboring gene long intergenic non-protein coding RNA 2328 Neighboring gene long intergenic non-protein coding RNA 2316 Neighboring gene long intergenic non-protein coding RNA 2309

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Jun 15 11:32:44 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide association study identifies loci affecting blood copper, selenium and zinc.
NHGRI GWA Catalog
Genome-wide association study of age at menarche in African-American women.
NHGRI GWA Catalog
Genome-wide association study of lung function decline in adults with and without asthma.
NHGRI GWA Catalog
Identification of heart rate-associated loci and their effects on cardiac conduction and rhythm disorders.
NHGRI GWA Catalog

Pathways from BioSystems

  • Downstream signaling of activated FGFR1, organism-specific biosystem (from REACTOME)
    Downstream signaling of activated FGFR1, organism-specific biosystemSignaling via FGFRs is mediated via direct recruitment of signaling proteins that bind to tyrosine auto-phosphorylation sites on the activated receptor and via closely linked docking proteins that be...
  • Signal Transduction, organism-specific biosystem (from REACTOME)
    Signal Transduction, organism-specific biosystemSignal transduction is a process in which extracellular signals elicit changes in cell state and activity. Transmembrane receptors sense changes in the cellular environment by binding ligands, such a...
  • Signaling by FGFR, organism-specific biosystem (from REACTOME)
    Signaling by FGFR, organism-specific biosystemThe 22 members of the fibroblast growth factor (FGF) family of growth factors mediate their cellular responses by binding to and activating the different isoforms encoded by the four receptor tyrosin...
  • Signaling by FGFR1, organism-specific biosystem (from REACTOME)
    Signaling by FGFR1, organism-specific biosystemThe 22 members of the fibroblast growth factor (FGF) family of growth factors mediate their cellular responses by binding to and activating the different isoforms encoded by the four receptor tyrosin...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA0405

Gene Ontology Provided by GOA

Function Evidence Code Pubs
chemorepellent activity IEA
Inferred from Electronic Annotation
more info
 
fibroblast growth factor receptor binding IEA
Inferred from Electronic Annotation
more info
 
protein binding, bridging NAS
Non-traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
axon guidance IEA
Inferred from Electronic Annotation
more info
 
basement membrane organization ISS
Inferred from Sequence or Structural Similarity
more info
 
biological_process ND
No biological Data available
more info
 
cell adhesion involved in heart morphogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
fibroblast growth factor receptor signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
fibroblast growth factor receptor signaling pathway TAS
Traceable Author Statement
more info
 
heart morphogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
negative chemotaxis IEA
Inferred from Electronic Annotation
more info
 
positive regulation of synapse assembly IEA
Inferred from Electronic Annotation
more info
 
regulation of neuron migration IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cell-cell junction ISS
Inferred from Sequence or Structural Similarity
more info
 
endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
 
extracellular exosome HDA PubMed 
extracellular matrix NAS
Non-traceable Author Statement
more info
PubMed 
focal adhesion HDA PubMed 
colocalizes_with focal adhesion ISS
Inferred from Sequence or Structural Similarity
more info
 
integral component of plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
integral component of plasma membrane NAS
Non-traceable Author Statement
more info
PubMed 
neuron projection IEA
Inferred from Electronic Annotation
more info
 
organelle membrane IEA
Inferred from Electronic Annotation
more info
 
plasma membrane TAS
Traceable Author Statement
more info
 
synapse IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
leucine-rich repeat transmembrane protein FLRT2
Names
fibronectin-like domain-containing leucine-rich transmembrane protein 2

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001346143.1NP_001333072.1  leucine-rich repeat transmembrane protein FLRT2 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2, 3, 4, and 5 encode the same protein.
    Source sequence(s)
    AL040720, AL049775, AL132641, BC126249, BQ018344
    Consensus CDS
    CCDS9877.1
    UniProtKB/Swiss-Prot
    O43155
    Conserved Domains (7) summary
    TIGR00864
    Location:282359
    PCC; polycystin cation channel protein
    smart00013
    Location:3566
    LRRNT; Leucine rich repeat N-terminal domain
    sd00031
    Location:6586
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:90110
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00041
    Location:426494
    fn3; Fibronectin type III domain
    pfam13855
    Location:252311
    LRR_8; Leucine rich repeat
    cl26018
    Location:54265
    NEL; C-terminal novel E3 ligase, LRR-interacting
  2. NM_001346144.1NP_001333073.1  leucine-rich repeat transmembrane protein FLRT2 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate exon in the 5' UTR, compared to variant 1. Variants 1, 2, 3, 4, and 5 encode the same protein.
    Source sequence(s)
    AL040720, AL049775, AL132641, BC126249, BC143936, BQ018344, DA995198
    Consensus CDS
    CCDS9877.1
    UniProtKB/Swiss-Prot
    O43155
    Related
    ENSP00000451050.1, ENST00000554746.1
    Conserved Domains (7) summary
    TIGR00864
    Location:282359
    PCC; polycystin cation channel protein
    smart00013
    Location:3566
    LRRNT; Leucine rich repeat N-terminal domain
    sd00031
    Location:6586
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:90110
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00041
    Location:426494
    fn3; Fibronectin type III domain
    pfam13855
    Location:252311
    LRR_8; Leucine rich repeat
    cl26018
    Location:54265
    NEL; C-terminal novel E3 ligase, LRR-interacting
  3. NM_001346145.1NP_001333074.1  leucine-rich repeat transmembrane protein FLRT2 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) uses an alternate exon in the 5' UTR, compared to variant 1. Variants 1, 2, 3, 4, and 5 encode the same protein.
    Source sequence(s)
    AL040720, AL049775, AL132641, BC126249, BQ018344
    Consensus CDS
    CCDS9877.1
    UniProtKB/Swiss-Prot
    O43155
    Conserved Domains (7) summary
    TIGR00864
    Location:282359
    PCC; polycystin cation channel protein
    smart00013
    Location:3566
    LRRNT; Leucine rich repeat N-terminal domain
    sd00031
    Location:6586
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:90110
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00041
    Location:426494
    fn3; Fibronectin type III domain
    pfam13855
    Location:252311
    LRR_8; Leucine rich repeat
    cl26018
    Location:54265
    NEL; C-terminal novel E3 ligase, LRR-interacting
  4. NM_001346146.1NP_001333075.1  leucine-rich repeat transmembrane protein FLRT2 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) uses an alternate exon in the 5' UTR, compared to variant 1. Variants 1, 2, 3, 4, and 5 encode the same protein.
    Source sequence(s)
    AL040720, AL049775, AL132641, BC126249, BQ018344, HY042730
    Consensus CDS
    CCDS9877.1
    UniProtKB/Swiss-Prot
    O43155
    Conserved Domains (7) summary
    TIGR00864
    Location:282359
    PCC; polycystin cation channel protein
    smart00013
    Location:3566
    LRRNT; Leucine rich repeat N-terminal domain
    sd00031
    Location:6586
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:90110
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00041
    Location:426494
    fn3; Fibronectin type III domain
    pfam13855
    Location:252311
    LRR_8; Leucine rich repeat
    cl26018
    Location:54265
    NEL; C-terminal novel E3 ligase, LRR-interacting
  5. NM_013231.5NP_037363.1  leucine-rich repeat transmembrane protein FLRT2 precursor

    See identical proteins and their annotated locations for NP_037363.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate exon in the 5' UTR, compared to variant 1. Variants 1, 2, 3, 4, and 5 encode the same protein.
    Source sequence(s)
    AL040720, AL049775, AL132641, BC126249, BQ018344, DA774592
    Consensus CDS
    CCDS9877.1
    UniProtKB/Swiss-Prot
    O43155
    Related
    ENSP00000332879.4, OTTHUMP00000245926, ENST00000330753.5, OTTHUMT00000413193
    Conserved Domains (7) summary
    TIGR00864
    Location:282359
    PCC; polycystin cation channel protein
    smart00013
    Location:3566
    LRRNT; Leucine rich repeat N-terminal domain
    sd00031
    Location:6586
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:90110
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00041
    Location:426494
    fn3; Fibronectin type III domain
    pfam13855
    Location:252311
    LRR_8; Leucine rich repeat
    cl26018
    Location:54265
    NEL; C-terminal novel E3 ligase, LRR-interacting

RNA

  1. NR_144385.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) contains the same first exon but uses an alternate 3' exon structure, compared to variant 1 and lacks the coding region found in variant 1. This variant is represented as non-coding because it lacks the entire coding region found in variant 1.
    Source sequence(s)
    AL049775, BX119446
  2. NR_144386.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (8) uses an alternate exon structure compared to variant 1 and lacks the coding region found in variant 1. This variant is represented as non-coding because it lacks the entire coding region found in variant 1.
    Source sequence(s)
    AL049775, BX119446
  3. NR_144387.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) uses an alternate exon structure compared to variant 1 and lacks the coding region found in variant 1. This variant is represented as non-coding because it lacks the entire coding region found in variant 1.
    Source sequence(s)
    AL049775, BX119446
    Related
    ENST00000557419.5

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000014.9 Reference GRCh38.p12 Primary Assembly

    Range
    85527372..85628696
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024449522.1XP_024305290.1  leucine-rich repeat transmembrane protein FLRT2 isoform X1

    Conserved Domains (7) summary
    TIGR00864
    Location:282359
    PCC; polycystin cation channel protein
    smart00013
    Location:3566
    LRRNT; Leucine rich repeat N-terminal domain
    sd00031
    Location:6586
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:90110
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00041
    Location:426494
    fn3; Fibronectin type III domain
    pfam13855
    Location:252311
    LRR_8; Leucine rich repeat
    cl26018
    Location:54265
    NEL; C-terminal novel E3 ligase, LRR-interacting
  2. XM_017021134.1XP_016876623.1  leucine-rich repeat transmembrane protein FLRT2 isoform X1

    UniProtKB/Swiss-Prot
    O43155
    Conserved Domains (7) summary
    TIGR00864
    Location:282359
    PCC; polycystin cation channel protein
    smart00013
    Location:3566
    LRRNT; Leucine rich repeat N-terminal domain
    sd00031
    Location:6586
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:90110
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00041
    Location:426494
    fn3; Fibronectin type III domain
    pfam13855
    Location:252311
    LRR_8; Leucine rich repeat
    cl26018
    Location:54265
    NEL; C-terminal novel E3 ligase, LRR-interacting
  3. XM_017021132.1XP_016876621.1  leucine-rich repeat transmembrane protein FLRT2 isoform X1

    UniProtKB/Swiss-Prot
    O43155
    Conserved Domains (7) summary
    TIGR00864
    Location:282359
    PCC; polycystin cation channel protein
    smart00013
    Location:3566
    LRRNT; Leucine rich repeat N-terminal domain
    sd00031
    Location:6586
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:90110
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00041
    Location:426494
    fn3; Fibronectin type III domain
    pfam13855
    Location:252311
    LRR_8; Leucine rich repeat
    cl26018
    Location:54265
    NEL; C-terminal novel E3 ligase, LRR-interacting
  4. XM_017021133.1XP_016876622.1  leucine-rich repeat transmembrane protein FLRT2 isoform X1

    UniProtKB/Swiss-Prot
    O43155
    Conserved Domains (7) summary
    TIGR00864
    Location:282359
    PCC; polycystin cation channel protein
    smart00013
    Location:3566
    LRRNT; Leucine rich repeat N-terminal domain
    sd00031
    Location:6586
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:90110
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00041
    Location:426494
    fn3; Fibronectin type III domain
    pfam13855
    Location:252311
    LRR_8; Leucine rich repeat
    cl26018
    Location:54265
    NEL; C-terminal novel E3 ligase, LRR-interacting
  5. XM_017021130.1XP_016876619.1  leucine-rich repeat transmembrane protein FLRT2 isoform X1

    UniProtKB/Swiss-Prot
    O43155
    Conserved Domains (7) summary
    TIGR00864
    Location:282359
    PCC; polycystin cation channel protein
    smart00013
    Location:3566
    LRRNT; Leucine rich repeat N-terminal domain
    sd00031
    Location:6586
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:90110
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00041
    Location:426494
    fn3; Fibronectin type III domain
    pfam13855
    Location:252311
    LRR_8; Leucine rich repeat
    cl26018
    Location:54265
    NEL; C-terminal novel E3 ligase, LRR-interacting
  6. XM_017021131.1XP_016876620.1  leucine-rich repeat transmembrane protein FLRT2 isoform X1

    UniProtKB/Swiss-Prot
    O43155
    Conserved Domains (7) summary
    TIGR00864
    Location:282359
    PCC; polycystin cation channel protein
    smart00013
    Location:3566
    LRRNT; Leucine rich repeat N-terminal domain
    sd00031
    Location:6586
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:90110
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00041
    Location:426494
    fn3; Fibronectin type III domain
    pfam13855
    Location:252311
    LRR_8; Leucine rich repeat
    cl26018
    Location:54265
    NEL; C-terminal novel E3 ligase, LRR-interacting
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