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Loxl4 lysyl oxidase-like 4 [ Rattus norvegicus (Norway rat) ]

Gene ID: 309380, updated on 2-Oct-2018

Summary

Official Symbol
Loxl4provided by RGD
Official Full Name
lysyl oxidase-like 4provided by RGD
Primary source
RGD:1308588
See related
Ensembl:ENSRNOG00000015727 Vega:OTTRNOG00000000981
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
Expression
Biased expression in Liver (RPKM 71.3), Kidney (RPKM 37.2) and 9 other tissues See more
Orthologs

Genomic context

See Loxl4 in Genome Data Viewer
Location:
1q54
Exon count:
15
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (261833365..261853599, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 1 NC_005100.3 (269284875..269305039, complement)

Chromosome 1 - NC_005100.4Genomic Context describing neighboring genes Neighboring gene microRNA 3085 Neighboring gene cartilage acidic protein 1 Neighboring gene R3H domain and coiled-coil containing 1-like Neighboring gene uncharacterized LOC102547572 Neighboring gene pyridine nucleotide-disulphide oxidoreductase domain 2

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

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
copper ion binding IEA
Inferred from Electronic Annotation
more info
 
protein-lysine 6-oxidase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein-lysine 6-oxidase activity ISO
Inferred from Sequence Orthology
more info
 
scavenger receptor activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
collagen fibril organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
peptidyl-lysine oxidation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
receptor-mediated endocytosis IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
extracellular region ISO
Inferred from Sequence Orthology
more info
 
extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
membrane IEA
Inferred from Electronic Annotation
more info
 
receptor complex IEA
Inferred from Electronic Annotation
more info
 
receptor complex ISO
Inferred from Sequence Orthology
more info
 

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_001107592.1NP_001101062.1  lysyl oxidase homolog 4 precursor

    See identical proteins and their annotated locations for NP_001101062.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473986
    UniProtKB/TrEMBL
    D4A9V5
    Related
    ENSRNOP00000021144.4, OTTRNOP00000000838, ENSRNOT00000021144.5, OTTRNOT00000001501
    Conserved Domains (3) summary
    smart00202
    Location:33133
    SR; Scavenger receptor Cys-rich
    pfam00530
    Location:42133
    SRCR; Scavenger receptor cysteine-rich domain
    pfam01186
    Location:535730
    Lysyl_oxidase; Lysyl oxidase

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
    261833365..261853599 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006231393.3XP_006231455.1  lysyl oxidase homolog 4 isoform X1

    Conserved Domains (3) summary
    smart00202
    Location:33133
    SR; Scavenger receptor Cys-rich
    pfam00530
    Location:42133
    SRCR; Scavenger receptor cysteine-rich domain
    pfam01186
    Location:534729
    Lysyl_oxidase; Lysyl oxidase

Alternate Rn_Celera

Genomic

  1. AC_000069.1 Alternate Rn_Celera

    Range
    237230416..237248737 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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