Human Gene LOXL4 (ENST00000260702.4_7) from GENCODE V47lift37
  Description: lysyl oxidase like 4 (from RefSeq NM_032211.7)
Gencode Transcript: ENST00000260702.4_7
Gencode Gene: ENSG00000138131.4_9
Transcript (Including UTRs)
   Position: hg19 chr10:100,007,447-100,027,951 Size: 20,505 Total Exon Count: 15 Strand: -
Coding Region
   Position: hg19 chr10:100,008,678-100,022,776 Size: 14,099 Coding Exon Count: 14 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr10:100,007,447-100,027,951)mRNA (may differ from genome)Protein (756 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: LOXL4_HUMAN
DESCRIPTION: RecName: Full=Lysyl oxidase homolog 4; EC=1.4.3.-; AltName: Full=Lysyl oxidase-like protein 4; AltName: Full=Lysyl oxidase-related protein C; Flags: Precursor;
FUNCTION: May modulate the formation of a collagenous extracellular matrix.
COFACTOR: Copper (By similarity).
COFACTOR: Contains 1 lysine tyrosylquinone (By similarity).
INTERACTION: Q15645:TRIP13; NbExp=3; IntAct=EBI-749562, EBI-358993;
SUBCELLULAR LOCATION: Secreted, extracellular space (Potential).
TISSUE SPECIFICITY: Expressed in many tissues, the highest levels among the tissues studied being in the skeletal muscle, testis and pancreas. Expressed in cartilage.
PTM: The lysine tyrosylquinone cross-link (LTQ) is generated by condensation of the epsilon-amino group of a lysine with a topaquinone produced by oxidation of tyrosine.
SIMILARITY: Belongs to the lysyl oxidase family.
SIMILARITY: Contains 4 SRCR domains.
SEQUENCE CAUTION: Sequence=AAH07522.1; Type=Erroneous initiation;
WEB RESOURCE: Name=Atlas of Genetics and Cytogenetics in Oncology and Haematology; URL="http://atlasgeneticsoncology.org/Genes/LOXL4ID41193ch10q24.html";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: LOXL4
Diseases sorted by gene-association score: squamous cell carcinoma, head and neck (3)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 15.47 RPKM in Minor Salivary Gland
Total median expression: 172.77 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -25.5095-0.268 Picture PostScript Text
3' UTR -377.301231-0.306 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR001695 - Lysyl_oxidase
IPR019828 - Lysyl_oxidase_CS
IPR001190 - Srcr_rcpt
IPR017448 - Srcr_rcpt-rel

Pfam Domains:
PF00530 - Scavenger receptor cysteine-rich domain
PF01186 - Lysyl oxidase

SCOP Domains:
56487 - SRCR-like

ModBase Predicted Comparative 3D Structure on Q96JB6
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005044 scavenger receptor activity
GO:0005507 copper ion binding
GO:0005515 protein binding
GO:0016491 oxidoreductase activity
GO:0016641 oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor
GO:0046872 metal ion binding

Biological Process:
GO:0006898 receptor-mediated endocytosis
GO:0055114 oxidation-reduction process

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0016020 membrane
GO:0043235 receptor complex
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  AK025542 - Homo sapiens cDNA: FLJ21889 fis, clone HEP03178.
BC013153 - Homo sapiens lysyl oxidase-like 4, mRNA (cDNA clone MGC:17373 IMAGE:3872314), complete cds.
BC035470 - Homo sapiens lysyl oxidase-like 4, mRNA (cDNA clone IMAGE:3872315).
AK172781 - Homo sapiens cDNA FLJ23942 fis, clone HEP02808.
BC007522 - Homo sapiens lysyl oxidase-like 4, mRNA (cDNA clone IMAGE:3353864), complete cds.
JD044841 - Sequence 25865 from Patent EP1572962.
JD359782 - Sequence 340806 from Patent EP1572962.
JD515026 - Sequence 496050 from Patent EP1572962.
JD075078 - Sequence 56102 from Patent EP1572962.
JD477187 - Sequence 458211 from Patent EP1572962.
JD054416 - Sequence 35440 from Patent EP1572962.
JD369319 - Sequence 350343 from Patent EP1572962.
JD363843 - Sequence 344867 from Patent EP1572962.
JD086773 - Sequence 67797 from Patent EP1572962.
JD097859 - Sequence 78883 from Patent EP1572962.
JD506919 - Sequence 487943 from Patent EP1572962.
AY036093 - Homo sapiens lysyl oxidase-like 4 mRNA, complete cds.
JD244132 - Sequence 225156 from Patent EP1572962.
JD076755 - Sequence 57779 from Patent EP1572962.
JD182586 - Sequence 163610 from Patent EP1572962.
JD268014 - Sequence 249038 from Patent EP1572962.
JD484374 - Sequence 465398 from Patent EP1572962.
JD077215 - Sequence 58239 from Patent EP1572962.
JD302388 - Sequence 283412 from Patent EP1572962.
JD512962 - Sequence 493986 from Patent EP1572962.
AF338441 - Homo sapiens lysyl oxidase-related protein C (LOXC) mRNA, complete cds.
AF395336 - Homo sapiens lysyl oxidase-like 4 (LOXL4) mRNA, complete cds.
KJ903394 - Synthetic construct Homo sapiens clone ccsbBroadEn_12788 LOXL4 gene, encodes complete protein.
KJ899760 - Synthetic construct Homo sapiens clone ccsbBroadEn_09154 LOXL4 gene, encodes complete protein.
DQ891067 - Synthetic construct clone IMAGE:100003697; FLH169030.01X; RZPDo839F0994D lysyl oxidase-like 4 (LOXL4) gene, encodes complete protein.
DQ894249 - Synthetic construct Homo sapiens clone IMAGE:100008709; FLH169026.01L; RZPDo839F0993D lysyl oxidase-like 4 (LOXL4) gene, encodes complete protein.
CU680530 - Synthetic construct Homo sapiens gateway clone IMAGE:100017484 5' read LOXL4 mRNA.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q96JB6 (Reactome details) participates in the following event(s):

R-HSA-2022141 Prolysyl oxidase activation
R-HSA-2002466 Formation of allysine by LOX
R-HSA-2395340 Formation of hydroxyallysine by LOX
R-HSA-2243919 Crosslinking of collagen fibrils
R-HSA-2022090 Assembly of collagen fibrils and other multimeric structures
R-HSA-1474290 Collagen formation
R-HSA-1566948 Elastic fibre formation
R-HSA-1474244 Extracellular matrix organization

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000260702.1, ENST00000260702.2, ENST00000260702.3, LOXC, LOXL4_HUMAN, NM_032211, Q5W0B3, Q96DY1, Q96JB6, Q96PC0, Q9H6T5, uc317gll.1, uc317gll.2
UCSC ID: ENST00000260702.4_7
RefSeq Accession: NM_032211.7
Protein: Q96JB6 (aka LOXL4_HUMAN or LOL4_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.