LRCH1 Gene
protein-coding GIFtS: 49
GCID: GC13P047127
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leucine-rich repeats and calponin homology (CH) domain containing...(Previous name: calponin homology (CH) domain containing 1 )
(Previous symbol: CHDC1)
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Aliases
for LRCH1 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 Repeats And Calponin Homology (CH) Domain Containing 11 2 | | NP812 3 | | CHDC11 2 3 | | Calponin Homology (CH) Domain Containing 11 | | KIAA10161 3 5 | | Leucine-Rich Repeat And Calponin Homology Domain-Containing Protein 12 | | Neuronal Protein 812 3 | | Calponin Homology Domain-Containing Protein 13 |
Export aliases for LRCH1 gene to outside databasesPrevious GC identifers: GC13P044925 GC13P046025 GC13P027920 |
Summaries
for LRCH1 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for LRCH1:
This gene encodes a protein with a leucine-rich repeat and a calponin homology domain. Polymorphism in this gene may beassociated with susceptibililty to knee osteoarthritis. Alternative splicing results in multiple transcript variantsencoding different isoforms. (provided by RefSeq, Mar 2010)
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Genomic Views
for LRCH1 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_000013.10 NC_018924.1 NT_024524.14
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the LRCH1 gene promoter:
AhR Lmo2 IRF-1 Arnt FOXJ2 (long isoform) Cart-1 STAT3 ZIC2/Zic2 FOXJ2 Zic3
Other transcription factors
Search SABiosciences Chromatin IP Primers for LRCH1
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat LRCH1 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 13q14.11 Ensembl cytogenetic band: 13q14.13 HGNC cytogenetic band: 13q14.11LRCH1 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 13 GeneLoc Exon Structure GeneLoc location for GC13P047127: view genomic region
(about GC identifiers)
Start:
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47,127,296 bp from pter |
End:
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47,327,176 bp from pter |
Size:
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199,881 bases |
Orientation:
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plus strand |
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Proteins
for LRCH1 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: LRCH1_HUMAN, Q9Y2L9 (See
protein sequence)Recommended Name: Leucine-rich repeat and calponin homology domain-containing protein 1 Size: 728 amino acids; 80875 Da
Sequence caution: Sequence=BAA76860.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;Sequence=CAH70793.1; Type=Erroneous gene model prediction; Sequence=CAH73643.1; Type=Erroneous gene model prediction;Sequence=CAI12229.1; Type=Erroneous gene model prediction;
Secondary accessions: B7ZLL5 F8W6F0 Q17R43 Q2KHR1 Q5TBU9 Q7Z5F6 Q7Z5F7Alternative splicing: 3 isoforms: Q9Y2L9-1 Q9Y2L9-2 Q9Y2L9-3 (No experimental confirmation available)Explore the universe of human proteins at neXtProt for LRCH1: NX_Q9Y2L9
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q9Y2L9
LRCH1 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (3 alternative transcripts):
NP_001157683.1 NP_001157685.1 NP_055931.1
ENSEMBL proteins: ENSP00000308493 ENSP00000374448 ENSP00000374447 ENSP00000417121 ENSP00000419256
Human Recombinant Protein Products:
LRCH1 Antibody Products:
Assay Products for LRCH1: |
Protein
Domains /
Families
for LRCH1 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
LRCH1 for domains About GeneDecksing
3 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q9Y2L9ProtoNet protein and cluster: Q9Y2L9 1 Blocks protein family: IPB001715 Calponin-like actin-binding
UniProtKB/Swiss-Prot: LRCH1_HUMAN, Q9Y2L9Similarity: Contains 1 CH (calponin-homology) domainSimilarity: Contains 9 LRR (leucine-rich) repeats |
Function
for LRCH1 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 LRCH1 (see all 5)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for LRCH1 (see all 3)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
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In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LRCH1 |
|
Pathways & Interactions
for LRCH1 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 LRCH1
STRING Interaction
Network Preview (showing 3 interactants - click image to see more details)
3 Interacting proteins for LRCH1 (Q9Y2L93 ENSP000003744484) via UniProtKB, MINT, STRING, and/or I2DAbout this table
|
Drugs & Compounds
for LRCH1 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 LRCH1
Search CenterWatch for drugs/clinical trials and news about LRCH1
|
Transcripts
for LRCH1 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 LRCH1 gene (3 alternative transcripts): NM_001164211.1 NM_001164213.1 NM_015116.2 Unigene Cluster for LRCH1: Leucine-rich repeats and calponin homology (CH) domain containing 1 Hs.507971 [show with all ESTs]Unigene Representative Sequence: NM_0011642116 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000311191(uc001vbl.4) ENST00000443945(uc010acp.2) ENST00000389798(uc001vbk.3 uc001vbj.3)
ENST00000389797 ENST00000463929 ENST00000478412
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for LRCH1 (see all 5)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for LRCH1 (see all 3)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector (see all 3): LRCH1 (NM_015116) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for LRCH1 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LRCH1 |
Additional cDNA sequence: AB023233.1 AK292898.1 AK309937.1 AY050631.1 AY050632.1 BC026097.1 BC112937.1 BC117472.1 BC143883.1 8 DOTS entries: DT.443266 DT.99984303 DT.428438 DT.95115501 DT.40291208 DT.120761698 DT.120761761 DT.97808141 24/94 AceView cDNA sequences (see all 94): AI628341 BQ421909 AI080462 AI308154 AA579863 BM991796 BE551517 AI969570 AA251355 CD514335 AI188546 AI245862 AA278553 AI094735 BE018226 AI038371 BQ709919 BF328431 AA011538 AW105617 BE044078 D81713 BI858367 AW007739
GeneLoc Exon Structure
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Expression
for LRCH1 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
| LRCH1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: AAACTACCCC
About this image
See LRCH1 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for LRCH1
SOURCE GeneReport for Unigene cluster: Hs.507971
SABiosciences Custom PCR Arrays for LRCH1
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for LRCH1
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat LRCH1 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat LRCH1 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat LRCH1 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LRCH1 |
Orthologs
for LRCH1 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
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This gene was present in the common ancestor of animals.
Orthologs for LRCH1 gene from 4/16 species (see all 16) About this table
| Organism |
Taxonomic
classification |
Gene |
Description |
Human
Similarity |
Orthology
Type |
Details |
chicken
(Gallus gallus) |
Aves |
LRCH11 |
leucine-rich repeats and calponin homology (CH) domain more |
76.84(n)
77.75(a) |
|
418855 XM_417050.3 XP_417050.3 |
African clawed frog
(Xenopus laevis) |
Amphibia |
Xl.196252 |
Xenopus laevis transcribed sequence with weak similarity more |
77.72(n) |
|
BX843582.1 |
zebrafish
(Danio rerio) |
Actinopterygii |
si:ch211-260b17.81 |
si:ch211-260b17.8 |
64.05(n)
67.06(a) |
|
560885 XM_684284.4 XP_689376.3 |
fruit fly
(Drosophila melanogaster) |
Insecta |
Lrch6 |
Leucine-rich-repeats and calponin homology domain ... |
20(a) |
1 → many |
2L(17367509-17384147) |
ENSEMBL Gene Tree for LRCH1 (if available)
TreeFam Gene Tree for LRCH1 (if available) |
Paralogs
for LRCH1 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for LRCH1 gene
- RSU12 LRCH22 LRSAM12 LRCH32 LRCH42
7 SIMAP similar genes for LRCH1 using alignment to 4 protein entries: LRCH1_HUMAN (see all proteins):LRCH2 LRCH4 LRRD1 LRRC57 LRCH3 LRRC28
CNN3
LRCH1 for paralogs About GeneDecksing
|
Genomic Variants
for LRCH1 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 13 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for LRCH1 (47127296 - 47327176 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 1 variation for LRCH1
1 CNV: 35166
Human Gene Mutation Database (HGMD): LRCH1
| SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing LRCH1 |
|
Disorders
/ Diseases
for LRCH1 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
|
LRCH1 for disorders About GeneDecksing
OMIM gene information: 610368
OMIM disorders: --
2  diseases for LRCH1: About MalaCardsosteoarthritis neuronitis
1 disease from the University of Copenhagen DISEASES database for LRCH1:Osteoarthritis Human Genome Epidemiology (HuGE) Navigator: LRCH1 (4 documents)
Export disorders for LRCH1 gene to outside databases
|
Publications
for LRCH1 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 LRCH1 gene, integrated from 9 sources (see all 21):
(articles sorted by number of sources associating them with LRCH1) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Prediction of the coding sequences of unidentified human genes. XIII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PubMed id 10231032)1, 2, 3 Nagase T.... Ohara O. (1999)
- Construction of expression-ready cDNA clones for KIAA genes: manual curation of 330 KIAA cDNA clones. (PubMed id 12168954)1, 2 Nakajima D.... Nagase T. (2002)
- NOTCH1 nuclear interactome reveals key regulators of i ts transcriptional activity and oncogenic function. (PubMed id 23022380)1 Yatim A....Benkirane M. (2012)
- Genetic association analysis of LRCH-1 for knee osteoa rthritis. (PubMed id 22325041)1 Shin M.H....Kim T.J. (2012)
- Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
- Field synopsis and synthesis of genetic association s tudies in osteoarthritis: the CUMAGAS-OSTEO information system. (PubMed id 20237151)1 Zintzaras E....Karachalios T. (2010)
- LRCH proteins: a novel family of cytoskeletal regulat ors. (PubMed id 20805893)1 Foussard H....Payre F. (2010)
- Identification of novel Smad2 and Smad3 associated proteins in response to TGF-beta1. (PubMed id 18729074)1 Brown K.A....Moses H.L. (2008)
- Lack of association of single nucleotide polymorphism in LRCH1 with knee osteoarthritis susceptibility. (PubMed id 18049793)1 Jiang Q....Ikegawa S. (2008)
- A quantitative atlas of mitotic phosphorylation. (PubMed id 18669648)2 Dephoure N.... Gygi S.P. (2008)
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External Searches for LRCH1 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing LRCH1 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing LRCH1 gene
(According to HUGE)
About This Section
| |
Specialized Databases showing LRCH1 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 LRCH1 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for LRCH1 gene:
Search GeneIP for patents involving LRCH1
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for LRCH1 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
|
 | |
 | |
 |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat LRCH1 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing LRCH1 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat LRCH1 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat LRCH1 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat LRCH1 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat LRCH1 |
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 | | | LRCH1 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LRCH1 |
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| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LRCH1 |
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