Human Gene LRRC29 (uc002esf.3) Description and Page Index
  Description: Homo sapiens leucine rich repeat containing 29 (LRRC29), transcript variant 2, mRNA.
RefSeq Summary (NM_001004055): This gene encodes a member of the F-box protein family which is characterized by an approximately 40 amino acid motif, the F-box. The F-box proteins constitute one of the four subunits of ubiquitin protein ligase complex called SCFs (SKP1-cullin-F-box), which function in phosphorylation-dependent ubiquitination. The F-box proteins are divided into 3 classes: Fbws containing WD-40 domains, Fbls containing leucine-rich repeats, and Fbxs containing either different protein-protein interaction modules or no recognizable motifs. The protein encoded by this gene belongs to the Fbls class and, in addition to an F-box, contains 9 tandem leucine-rich repeats. Two transcript variants encoding the same protein have been found for this gene. Other variants may occur, but their full-length natures have not been characterized. [provided by RefSeq, Jul 2008].
Transcript (Including UTRs)
   Position: hg19 chr16:67,241,042-67,260,901 Size: 19,860 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chr16:67,241,508-67,244,091 Size: 2,584 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:67,241,042-67,260,901)mRNA (may differ from genome)Protein (223 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
PubMedStanford SOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: LRC29_HUMAN
DESCRIPTION: RecName: Full=Leucine-rich repeat-containing protein 29; AltName: Full=F-box and leucine-rich repeat protein 9; AltName: Full=F-box protein FBL9; AltName: Full=F-box/LRR-repeat protein 9;
FUNCTION: Probably recognizes and binds to some phosphorylated proteins and promotes their ubiquitination and degradation.
SUBUNIT: Part of a SCF (SKP1-cullin-F-box) protein ligase complex (By similarity).
TISSUE SPECIFICITY: Expressed in heart, kidney, liver, lung and pancreas.
SIMILARITY: Contains 1 F-box domain.
SIMILARITY: Contains 7 LRR (leucine-rich) repeats.
SEQUENCE CAUTION: Sequence=AAF03701.1; Type=Frameshift; Positions=13;

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): LRRC29
CDC HuGE Published Literature: LRRC29
Positive Disease Associations: Lipoproteins, HDL
Related Studies:
  1. Lipoproteins, HDL
    , , . [PubMed 0]

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 7.68 RPKM in Pituitary
Total median expression: 96.69 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -110.70260-0.426 Picture PostScript Text
3' UTR -160.92372-0.433 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
  Pfam Domains:
PF00560 - Leucine Rich Repeat
PF13516 - Leucine Rich repeat

SCOP Domains:
52047 - RNI-like
52058 - L domain-like
52075 - Outer arm dynein light chain 1

ModBase Predicted Comparative 3D Structure on Q8WV35
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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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding


-  Descriptions from all associated GenBank mRNAs
  BC018785 - Homo sapiens leucine rich repeat containing 29, mRNA (cDNA clone MGC:32109 IMAGE:4875646), complete cds.
AF176701 - Homo sapiens F-box protein FBL9 mRNA, partial cds.
AK096101 - Homo sapiens cDNA FLJ38782 fis, clone LIVER2001113, highly similar to Leucine-rich repeat-containing protein 29.
JD248587 - Sequence 229611 from Patent EP1572962.
JD325601 - Sequence 306625 from Patent EP1572962.
JD192425 - Sequence 173449 from Patent EP1572962.
JD209490 - Sequence 190514 from Patent EP1572962.
JD179549 - Sequence 160573 from Patent EP1572962.
JD271915 - Sequence 252939 from Patent EP1572962.
JD146069 - Sequence 127093 from Patent EP1572962.
JD186158 - Sequence 167182 from Patent EP1572962.
JD460243 - Sequence 441267 from Patent EP1572962.
AK316602 - Homo sapiens cDNA, FLJ96712, Homo sapiens F-box and leucine-rich repeat protein 9 (FBXL9), mRNA.
KJ893541 - Synthetic construct Homo sapiens clone ccsbBroadEn_02935 LRRC29 gene, encodes complete protein.
DQ891996 - Synthetic construct clone IMAGE:100004626; FLH182167.01X; RZPDo839D04138D leucine rich repeat containing 29 (LRRC29) gene, encodes complete protein.
DQ895186 - Synthetic construct Homo sapiens clone IMAGE:100009646; FLH182163.01L; RZPDo839D04137D leucine rich repeat containing 29 (LRRC29) gene, encodes complete protein.
CU676332 - Synthetic construct Homo sapiens gateway clone IMAGE:100021868 5' read LRRC29 mRNA.
JD462418 - Sequence 443442 from Patent EP1572962.
AK298088 - Homo sapiens cDNA FLJ57407 complete cds, weakly similar to Mus musculus leucine rich repeat containing 29 (Lrrc29), mRNA.
JD396805 - Sequence 377829 from Patent EP1572962.
JD331918 - Sequence 312942 from Patent EP1572962.
JD164142 - Sequence 145166 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B2RE92, FBL9, FBXL9, LRC29_HUMAN, NM_001004055, NP_036295, Q8WV35, Q9UKA0
UCSC ID: uc002esf.3
RefSeq Accession: NM_001004055
Protein: Q8WV35 (aka LRC29_HUMAN or LR29_HUMAN)
CCDS: CCDS32465.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001004055.1
exon count: 7CDS single in 3' UTR: no RNA size: 1321
ORF size: 672CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1284.00frame shift in genome: no % Coverage: 98.71
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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-  Methods, Credits, and Use Restrictions
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