Human Gene LRRC1 (ENST00000370888.6) from GENCODE V44
  Description: Homo sapiens leucine rich repeat containing 1 (LRRC1), mRNA. (from RefSeq NM_018214)
Gencode Transcript: ENST00000370888.6
Gencode Gene: ENSG00000137269.15
Transcript (Including UTRs)
   Position: hg38 chr6:53,795,005-53,924,125 Size: 129,121 Total Exon Count: 14 Strand: +
Coding Region
   Position: hg38 chr6:53,795,257-53,922,793 Size: 127,537 Coding Exon Count: 14 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr6:53,795,005-53,924,125)mRNA (may differ from genome)Protein (524 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGencode
GeneCardsHGNCHPRDLynxMalacardsMGI
neXtProtOMIMPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: LRRC1_HUMAN
DESCRIPTION: RecName: Full=Leucine-rich repeat-containing protein 1; AltName: Full=LANO adapter protein; AltName: Full=LAP and no PDZ protein;
SUBUNIT: Interacts with DLG1 and DLG4. May form a complex with DLG1 and ERBB2IP, where interaction between LRRC1 and ERBB2IP is indirect.
SUBCELLULAR LOCATION: Cytoplasm. Membrane; Peripheral membrane protein. Note=Localized at the basolateral side of epithelial cells.
TISSUE SPECIFICITY: Expressed strongly in testis and placenta, followed by heart, lung, kidney, thyroid, trachea, colon, prostate and pancreas.
SIMILARITY: Contains 17 LRR (leucine-rich) repeats.
SEQUENCE CAUTION: Sequence=BAA91801.1; Type=Frameshift; Positions=262;

-  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: LRRC1
Diseases sorted by gene-association score: epilepsy, generalized, with febrile seizures plus, type 5 (1)

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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 11.90 RPKM in Skin - Sun Exposed (Lower leg)
Total median expression: 227.27 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 -118.00252-0.468 Picture PostScript Text
3' UTR -317.801332-0.239 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
IPR025875 - Leu-rich_rpt_2_copies

Pfam Domains:
PF00560 - Leucine Rich Repeat
PF12799 - Leucine Rich repeats (2 copies)

ModBase Predicted Comparative 3D Structure on Q9BTT6
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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
Genome BrowserGenome BrowserGenome BrowserNo orthologGenome BrowserNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsembl WormBase 
Protein SequenceProtein SequenceProtein Sequence Protein Sequence 
AlignmentAlignmentAlignment Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Biological Process:
GO:0007165 signal transduction

Cellular Component:
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0016020 membrane


-  Descriptions from all associated GenBank mRNAs
  AK021896 - Homo sapiens cDNA FLJ11834 fis, clone HEMBA1006583, weakly similar to Drosophila melanogaster Scribble (scrib) mRNA.
BC003193 - Homo sapiens leucine rich repeat containing 1, mRNA (cDNA clone MGC:936 IMAGE:3504090), complete cds.
AF332199 - Homo sapiens leucine-rich repeats protein mRNA, complete cds.
AK292248 - Homo sapiens cDNA FLJ77590 complete cds, highly similar to Homo sapiens leucine rich repeat containing 1, mRNA.
CU678434 - Synthetic construct Homo sapiens gateway clone IMAGE:100023429 5' read LRRC1 mRNA.
AB527517 - Synthetic construct DNA, clone: pF1KB5892, Homo sapiens LRRC1 gene for leucine rich repeat containing 1, without stop codon, in Flexi system.
EU176638 - Synthetic construct Homo sapiens clone IMAGE:100011438; FLH180449.01L; RZPDo839B09254D leucine rich repeat containing 1 (LRRC1) gene, encodes complete protein.
AF359380 - Homo sapiens LANO adaptor protein (LANO) mRNA, complete cds.
AK001637 - Homo sapiens cDNA FLJ10775 fis, clone NT2RP4000312, weakly similar to ADENYLATE CYCLASE (EC 4.6.1.1).
JD481998 - Sequence 463022 from Patent EP1572962.
JD336592 - Sequence 317616 from Patent EP1572962.
JD219744 - Sequence 200768 from Patent EP1572962.
JD477984 - Sequence 459008 from Patent EP1572962.
JD147014 - Sequence 128038 from Patent EP1572962.
JD270924 - Sequence 251948 from Patent EP1572962.
JD338086 - Sequence 319110 from Patent EP1572962.
JD464451 - Sequence 445475 from Patent EP1572962.
JD288459 - Sequence 269483 from Patent EP1572962.
JD168244 - Sequence 149268 from Patent EP1572962.
JD374647 - Sequence 355671 from Patent EP1572962.
JD504774 - Sequence 485798 from Patent EP1572962.
JD163147 - Sequence 144171 from Patent EP1572962.
JD268954 - Sequence 249978 from Patent EP1572962.
AJ420513 - Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 683893.
JD198549 - Sequence 179573 from Patent EP1572962.
JD527959 - Sequence 508983 from Patent EP1572962.
JD390980 - Sequence 372004 from Patent EP1572962.
JD359134 - Sequence 340158 from Patent EP1572962.
JD062177 - Sequence 43201 from Patent EP1572962.
JD324723 - Sequence 305747 from Patent EP1572962.
JD328785 - Sequence 309809 from Patent EP1572962.
JD087866 - Sequence 68890 from Patent EP1572962.
JD287367 - Sequence 268391 from Patent EP1572962.
JD099469 - Sequence 80493 from Patent EP1572962.
JD136969 - Sequence 117993 from Patent EP1572962.
JD554954 - Sequence 535978 from Patent EP1572962.
JD485945 - Sequence 466969 from Patent EP1572962.
JD398149 - Sequence 379173 from Patent EP1572962.
JD327376 - Sequence 308400 from Patent EP1572962.
JD488795 - Sequence 469819 from Patent EP1572962.
JD419820 - Sequence 400844 from Patent EP1572962.
JD171238 - Sequence 152262 from Patent EP1572962.
JD313191 - Sequence 294215 from Patent EP1572962.
JD185908 - Sequence 166932 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000370888.1, ENST00000370888.2, ENST00000370888.3, ENST00000370888.4, ENST00000370888.5, LANO, LRRC1_HUMAN, NM_018214, Q5TGN3, Q9BTT6, Q9HAC0, Q9NVF1, uc003pcd.1, uc003pcd.2, uc003pcd.3
UCSC ID: ENST00000370888.6
RefSeq Accession: NM_018214
Protein: Q9BTT6 (aka LRRC1_HUMAN or LRR1_HUMAN)
CCDS: CCDS4953.2

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