LRRC40 Gene
protein-coding GIFtS: 45
GCID: GC01M070610
|
|
leucine rich repeat containing 40
| |
Aliases
for LRRC40 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Leucine Rich Repeat Containing 401 2 | | FLJ203311 | | DJ677H15.11 | | Leucine-Rich Repeat-Containing Protein 402 |
Export aliases for LRRC40 gene to outside databasesPrevious GC identifers: GC01M070323 GC01M068721 |
Summaries
for LRRC40 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Gene Wiki entry for LRRC40
|
Genomic Views
for LRRC40 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000001.10 NC_018912.1 NT_032977.9
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the LRRC40 gene promoter:
E2F-4 E2F-5 GATA-3 POU6F1 (c2) HNF-3beta GATA-1 GATA-2 FOXL1 CREB deltaCREB
Other transcription factors
Search SABiosciences Chromatin IP Primers for LRRC40
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat LRRC40 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 1p31.1 Ensembl cytogenetic band: 1p31.1 HGNC cytogenetic band: 1p31.1LRRC40 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 1 GeneLoc Exon Structure GeneLoc location for GC01M070610: view genomic region
(about GC identifiers)
Start:
|
70,610,485 bp from pter |
End:
|
70,671,361 bp from pter |
Size:
|
60,877 bases |
Orientation:
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minus strand |
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Proteins
for LRRC40 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: LRC40_HUMAN, Q9H9A6 (See
protein sequence)Recommended Name: Leucine-rich repeat-containing protein 40 Size: 602 amino acids; 68250 Da
Sequence caution: Sequence=BAA91094.1; Type=Erroneous initiation;
Secondary accessions: Q9BTR7 Q9NSK1 Q9NXC1Explore the universe of human proteins at neXtProt for LRRC40: NX_Q9H9A6
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q9H9A6
LRRC40 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_060238.3
ENSEMBL proteins: ENSP00000359990
Human Recombinant Protein Products:
LRRC40 Antibody Products:
Assay Products for LRRC40: |
Protein
Domains /
Families
for LRRC40 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
LRRC40 for domains About GeneDecksing
4 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q9H9A6ProtoNet protein and cluster: Q9H9A6 UniProtKB/Swiss-Prot: LRC40_HUMAN, Q9H9A6Similarity: Contains 20 LRR (leucine-rich) repeats |
Function
for LRRC40 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for LRRC40 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for LRRC40 (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector: LRRC40 (NM_017768) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for LRRC40 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LRRC40 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LRRC40 |
1 GenomeRNAi human phenotype for LRRC40:
|
Pathways & Interactions
for LRRC40 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for LRRC40
STRING Interaction
Network Preview (showing 5 interactants - click image to see 12)
5/748 Interacting proteins for LRRC40 (Q9H9A62, 3 ENSP000003599904) via UniProtKB, MINT, STRING, and/or I2D (see all 748)About this table
|
Drugs & Compounds
for LRRC40 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for LRRC40
Search CenterWatch for drugs/clinical trials and news about LRRC40 / LRC40
|
Transcripts
for LRRC40 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for LRRC40 gene: NM_017768.4 Unigene Cluster for LRRC40: Leucine rich repeat containing 40 Hs.147836 [show with all ESTs]Unigene Representative Sequence: AL3901491 Ensembl transcript including schematic representation, and UCSC links where relevant: ENST00000370952(uc001der.2)
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for LRRC40 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for LRRC40 (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: LRRC40 (NM_017768) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for LRRC40 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LRRC40 |
Additional cDNA sequence: AK000338.1 AK022951.1 AK225337.1 AL162076.1 AL390149.2 BC003407.1 BC008586.1 10 DOTS entries: DT.95275304 DT.413768 DT.102826567 DT.102826568 DT.121411751 DT.92432898 DT.121411656 DT.434851 DT.91826408 DT.97819601 24/131 AceView cDNA sequences (see all 131): AU280533 AL390149 BC003407 AA564978 BM722718 BC008586 BU163359 AA310521 AA232403 D61645 AL162076 AI354270 AW771727 BM984696 AA081097 AI015897 AA314039 AA992075 AA187149 BG195841 AW673804 BG201007 AW673312 CB134111
GeneLoc Exon Structure
4 Alternative Splicing Database (ASD) splice patterns (SP) for LRRC40 About this scheme
| ExUns: | 1a | · | 1b | ^ | 2 | ^ | 3 | ^ | 4 | ^ | 5 | ^ | 6a | · | 6b | ^ | 7a | · | 7b | · | 7c | ^ | 8 | ^ | 9 | ^ | 10 | ^ | 11 | ^ | 12 | ^ | 13 | ^ | 14 | ^ | 15 | ^ | 16 |
|---|
|
| SP1: | | | | | | | | | | | - | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP2: | | | | | - | | - | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP3: | | | | | - | | - | | | | - | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP4: | | | | | | | - | | | | - | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
ECgene alternative splicing isoforms for LRRC40
|
Expression
for LRRC40 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| LRRC40 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: TTCAGAATAA
About this image
See LRRC40 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for LRRC40
SOURCE GeneReport for Unigene cluster: Hs.147836
SABiosciences Custom PCR Arrays for LRRC40
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for LRRC40
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat LRRC40 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat LRRC40 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat LRRC40 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LRRC40 |
Orthologs
for LRRC40 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of eukaryotes.
Orthologs for LRRC40 gene from 6/20 species (see all 20) About this table
ENSEMBL Gene Tree for LRRC40 (if available)
TreeFam Gene Tree for LRRC40 (if available) |
Paralogs
for LRRC40 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for LRRC40 gene
- LRRC72 LRRC22 ERBB2IP2 MFHAS12 LRRC182 LRRC302 LRRC12 PIDD2
- LRRIQ42 SCRIB2 SHOC22 LRRD12 LRRC10B2 LRRC392 LRRC102
2 SIMAP similar genes for LRRC40 using alignment to 1 protein entry: LRC40_HUMAN:LRIG3 RSU1
LRRC40 for paralogs About GeneDecksing
1 Pseudogenes.org Pseudogene for LRRC40
PGOHUM00000238811
|
Genomic Variants
for LRRC40 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 1 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for LRRC40 (70610485 - 70671361 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for LRRC40: -- | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing LRRC40 |
|
Disorders
/ Diseases
for LRRC40 gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
| -- |
Publications
for LRRC40 gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for LRRC40 gene, integrated from 9 sources (see all 16):
(articles sorted by number of sources associating them with LRRC40) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (2006)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (2002)
- Proteome-wide identification of ubiquitylation sites b y conjugation of engineered lysine-less ubiquitin. (PubMed id 22053931)1 Oshikawa K....Nakayama K.I. (2012)
- A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
- Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
- Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
- Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
- A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
|
External Searches for LRRC40 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing LRRC40 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing LRRC40 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing LRRC40 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for LRRC40 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for LRRC40 gene:
Search GeneIP for patents involving LRRC40
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for LRRC40 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
| | |  | Browse OriGene Antibodies | | OriGene shRNA RFP for LRRC40 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for LRRC40 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for LRRC40 | | | OriGene Protein Over-expression Lysate for LRRC40 | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for LRRC40 | | OriGene 3'-UTR Clone for LRRC40 | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for LRRC40 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for LRRC40 | | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | | OriGene Purified Protein for LRRC40 | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling | | | OriGene Custom Antibody Services for LRRC40 | | OriGene Custom Protein Services for LRRC40 | | | OriGene Custom Immunoassay Development | | |
| |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat LRRC40 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing LRRC40 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat LRRC40 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat LRRC40 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat LRRC40 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat LRRC40 |
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 |  |  |  | |
| | | | Search Tocris compounds for LRRC40 |
| |  |  |  |  | | | | |
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 | | | LRRC40 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LRRC40 |
|  |  |  | | | | ThermoFisher Antibodies for LRRC40 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LRRC40 |
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