Human Gene LRRC59 (ENST00000225972.8_7) from GENCODE V47lift37
  Description: leucine rich repeat containing 59 (from RefSeq NM_018509.4)
Gencode Transcript: ENST00000225972.8_7
Gencode Gene: ENSG00000108829.10_15
Transcript (Including UTRs)
   Position: hg19 chr17:48,458,599-48,474,884 Size: 16,286 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chr17:48,460,349-48,474,678 Size: 14,330 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:48,458,599-48,474,884)mRNA (may differ from genome)Protein (307 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: LRC59_HUMAN
DESCRIPTION: RecName: Full=Leucine-rich repeat-containing protein 59;
SUBUNIT: Interacts with SGOL1.
SUBCELLULAR LOCATION: Microsome membrane; Single-pass type II membrane protein (By similarity). Endoplasmic reticulum membrane; Single-pass type II membrane protein (Potential).
SIMILARITY: Contains 5 LRR (leucine-rich) repeats.
SEQUENCE CAUTION: Sequence=AAF69611.1; Type=Erroneous initiation;

-  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


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • C111118 2',3,3',4',5-pentachloro-4-hydroxybiphenyl
  • C014211 2,3,7,8-tetrachlorodibenzofuran
  • C016403 2,4-dinitrotoluene
  • C023514 2,6-dinitrotoluene
  • C532162 2-(1H-indazol-4-yl)-6-(4-methanesulfonylpiperazin-1-ylmethyl)-4-morpholin-4-ylthieno(3,2-d)pyrimidine
  • C027576 4-hydroxy-2-nonenal
  • D000082 Acetaminophen
  • D016572 Cyclosporine
  • D003993 Dibutyl Phthalate
  • D004052 Diethylnitrosamine
          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: 35.09 RPKM in Cells - Cultured fibroblasts
Total median expression: 522.74 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 -95.80206-0.465 Picture PostScript Text
3' UTR -533.801750-0.305 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
IPR001611 - Leu-rich_rpt

Pfam Domains:
PF13855 - Leucine rich repeat

SCOP Domains:
52047 - RNI-like
52058 - L domain-like
52075 - Outer arm dynein light chain 1
52540 - P-loop containing nucleoside triphosphate hydrolases

ModBase Predicted Comparative 3D Structure on Q96AG4
FrontTopSide
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 Gene Details  
Gene SorterGene Sorter Gene Sorter  
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0045296 cadherin binding

Cellular Component:
GO:0005634 nucleus
GO:0005635 nuclear envelope
GO:0005783 endoplasmic reticulum
GO:0005789 endoplasmic reticulum membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0031090 organelle membrane
GO:0042645 mitochondrial nucleoid
GO:0043231 intracellular membrane-bounded organelle


-  Descriptions from all associated GenBank mRNAs
  AF119857 - Homo sapiens PRO1855 mRNA, complete cds.
BC052279 - Homo sapiens leucine rich repeat containing 59, mRNA (cDNA clone MGC:59989 IMAGE:4127952), complete cds.
AK025328 - Homo sapiens cDNA: FLJ21675 fis, clone COL09090, highly similar to AF119857 Homo sapiens PRO1855 mRNA.
JD457702 - Sequence 438726 from Patent EP1572962.
JD415908 - Sequence 396932 from Patent EP1572962.
JD277047 - Sequence 258071 from Patent EP1572962.
JD463948 - Sequence 444972 from Patent EP1572962.
JD359465 - Sequence 340489 from Patent EP1572962.
AK130572 - Homo sapiens cDNA FLJ27062 fis, clone SPL01019.
DQ578522 - Homo sapiens piRNA piR-46634, complete sequence.
JD372156 - Sequence 353180 from Patent EP1572962.
JD306700 - Sequence 287724 from Patent EP1572962.
JD360539 - Sequence 341563 from Patent EP1572962.
DQ599331 - Homo sapiens piRNA piR-37397, complete sequence.
DQ571803 - Homo sapiens piRNA piR-31915, complete sequence.
JD146817 - Sequence 127841 from Patent EP1572962.
JD296955 - Sequence 277979 from Patent EP1572962.
DQ579028 - Homo sapiens piRNA piR-47140, complete sequence.
JD102908 - Sequence 83932 from Patent EP1572962.
JD235931 - Sequence 216955 from Patent EP1572962.
JD422010 - Sequence 403034 from Patent EP1572962.
DQ582167 - Homo sapiens piRNA piR-32279, complete sequence.
JD509140 - Sequence 490164 from Patent EP1572962.
JD250421 - Sequence 231445 from Patent EP1572962.
JD306589 - Sequence 287613 from Patent EP1572962.
JD036957 - Sequence 17981 from Patent EP1572962.
BC017168 - Homo sapiens leucine rich repeat containing 59, mRNA (cDNA clone MGC:9517 IMAGE:3907072), complete cds.
JD044522 - Sequence 25546 from Patent EP1572962.
JD038942 - Sequence 19966 from Patent EP1572962.
JD483473 - Sequence 464497 from Patent EP1572962.
JD243084 - Sequence 224108 from Patent EP1572962.
JD555989 - Sequence 537013 from Patent EP1572962.
JD246021 - Sequence 227045 from Patent EP1572962.
DQ572625 - Homo sapiens piRNA piR-40737, complete sequence.
JD050161 - Sequence 31185 from Patent EP1572962.
DQ584964 - Homo sapiens piRNA piR-52076, complete sequence.
JD561961 - Sequence 542985 from Patent EP1572962.
AK316593 - Homo sapiens cDNA, FLJ95955.
DQ892375 - Synthetic construct clone IMAGE:100005005; FLH185740.01X; RZPDo839E06148D leucine rich repeat containing 59 (LRRC59) gene, encodes complete protein.
DQ895589 - Synthetic construct Homo sapiens clone IMAGE:100010049; FLH185736.01L; RZPDo839E06147D leucine rich repeat containing 59 (LRRC59) gene, encodes complete protein.
DQ577336 - Homo sapiens piRNA piR-45448, complete sequence.
DQ578745 - Homo sapiens piRNA piR-46857, complete sequence.
DQ576135 - Homo sapiens piRNA piR-44247, complete sequence.
BC033695 - Homo sapiens leucine rich repeat containing 59, mRNA (cDNA clone IMAGE:5214372), with apparent retained intron.

-  Other Names for This Gene
  Alternate Gene Symbols: B2RE83, D3DTX8, ENST00000225972.1, ENST00000225972.2, ENST00000225972.3, ENST00000225972.4, ENST00000225972.5, ENST00000225972.6, ENST00000225972.7, LRC59_HUMAN, NM_018509, PRO1855, Q96AG4, Q9P189, uc317dks.1, uc317dks.2
UCSC ID: ENST00000225972.8_7
RefSeq Accession: NM_018509.4
Protein: Q96AG4 (aka LRC59_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.