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Lrfn3 leucine rich repeat and fibronectin type III domain containing 3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 308495, updated on 12-Aug-2018

Summary

Official Symbol
Lrfn3provided by RGD
Official Full Name
leucine rich repeat and fibronectin type III domain containing 3provided by RGD
Primary source
RGD:1305567
See related
Ensembl:ENSRNOG00000020839
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Salm4
Expression
Biased expression in Adrenal (RPKM 12.9), Brain (RPKM 12.1) and 9 other tissues See more
Orthologs

Genomic context

See Lrfn3 in Genome Data Viewer
Location:
1q21
Exon count:
3
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (88819439..88827002, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 1 NC_005100.3 (89975457..89983028, complement)

Chromosome 1 - NC_005100.4Genomic Context describing neighboring genes Neighboring gene spectrin repeat containing nuclear envelope family member 4 Neighboring gene succinate dehydrogenase complex assembly factor 1 Neighboring gene uncharacterized LOC108349559 Neighboring gene similar to actin, gamma 2, smooth muscle, enteric

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Pathways from BioSystems

General gene information

Homology

Gene Ontology Provided by RGD

Component Evidence Code Pubs
axon IEA
Inferred from Electronic Annotation
more info
 
cell junction IEA
Inferred from Electronic Annotation
more info
 
cell surface IEA
Inferred from Electronic Annotation
more info
 
cell surface ISO
Inferred from Sequence Orthology
more info
 
dendrite IEA
Inferred from Electronic Annotation
more info
 
glutamatergic synapse EXP
Inferred from Experiment
more info
PubMed 
glutamatergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
glutamatergic synapse IMP
Inferred from Mutant Phenotype
more info
PubMed 
integral component of postsynaptic density membrane IDA
Inferred from Direct Assay
more info
PubMed 
integral component of postsynaptic specialization membrane IDA
Inferred from Direct Assay
more info
PubMed 
integral component of presynaptic active zone membrane IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
leucine-rich repeat and fibronectin type-III domain-containing protein 3
Names
synaptic adhesion-like molecule 4

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_001107502.1NP_001100972.1  leucine-rich repeat and fibronectin type-III domain-containing protein 3 precursor

    See identical proteins and their annotated locations for NP_001100972.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473979
    UniProtKB/Swiss-Prot
    B0BNK7
    Conserved Domains (8) summary
    smart00410
    Location:302383
    IG_like; Immunoglobulin like
    cd00116
    Location:63168
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00031
    Location:242253
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:6384
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00041
    Location:425502
    fn3; Fibronectin type III domain
    pfam13855
    Location:59119
    LRR_8; Leucine rich repeat
    cl11960
    Location:310383
    Ig; Immunoglobulin domain
    cl15307
    Location:249281
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005100.4 Reference Rnor_6.0 Primary Assembly

    Range
    88819439..88827002 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006228771.2XP_006228833.1  leucine-rich repeat and fibronectin type-III domain-containing protein 3 isoform X1

    See identical proteins and their annotated locations for XP_006228833.1

    UniProtKB/Swiss-Prot
    B0BNK7
    Related
    ENSRNOP00000028275.4, ENSRNOT00000028275.5
    Conserved Domains (8) summary
    smart00410
    Location:302383
    IG_like; Immunoglobulin like
    cd00116
    Location:63168
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00031
    Location:242253
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:6384
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00041
    Location:425502
    fn3; Fibronectin type III domain
    pfam13855
    Location:59119
    LRR_8; Leucine rich repeat
    cl11960
    Location:310383
    Ig; Immunoglobulin domain
    cl15307
    Location:249281
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

Alternate Rn_Celera

Genomic

  1. AC_000069.1 Alternate Rn_Celera

    Range
    79989362..79994840 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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