LRRC39 Gene
protein-coding GIFtS: 43
GCID: GC01M100614
|
|
leucine rich repeat containing 39
| |
Aliases
for LRRC39 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 391 2 | | Densin Hlg2 3 | | MGC148161 | | Leucine-Rich Repeat-Containing Protein 392 |
Export aliases for LRRC39 gene to outside databasesPrevious GC identifers: GC01M100327 GC01M098737 |
Summaries
for LRRC39 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 LRRC39
|
Genomic Views
for LRRC39 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 LRRC39 gene promoter:
Nkx2-2 SREBP-1c POU3F2 RORalpha2 SREBP-1b C/EBPalpha GATA-1 SREBP-1a STAT3 Cart-1
Other transcription factors
Search SABiosciences Chromatin IP Primers for LRRC39
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat LRRC39 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 1p21.2 Ensembl cytogenetic band: 1p21.2 HGNC cytogenetic band: 1p21.3LRRC39 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 GC01M100614: view genomic region
(about GC identifiers)
Start:
|
100,614,409 bp from pter |
End:
|
100,643,771 bp from pter |
Size:
|
29,363 bases |
Orientation:
|
minus strand |
|
Proteins
for LRRC39 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: LRC39_HUMAN, Q96DD0 (See
protein sequence)Recommended Name: Leucine-rich repeat-containing protein 39 Size: 335 amino acids; 38793 Da
Secondary accessions: B3KUD2 D3DT56 Q5VVK7Alternative splicing: 2 isoforms: Q96DD0-1 Q96DD0-2 (No experimental confirmation available)Explore the universe of human proteins at neXtProt for LRRC39: NX_Q96DD0
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q96DD0
LRRC39 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (4 alternative transcripts):
NP_001243314.1 NP_001243315.1 NP_001243316.1 NP_653221.1
ENSEMBL proteins: ENSP00000359156 ENSP00000359157 ENSP00000344470
Human Recombinant Protein Products:
LRRC39 Antibody Products:
Assay Products for LRRC39: |
Protein
Domains /
Families
for LRRC39 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
LRRC39 for domains About GeneDecksing
2 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q96DD0ProtoNet protein and cluster: Q96DD0 UniProtKB/Swiss-Prot: LRC39_HUMAN, Q96DD0Similarity: Contains 9 LRR (leucine-rich) repeats |
Function
for LRRC39 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 LRRC39 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for LRRC39 (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector: LRRC39 (NM_144620) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
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In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LRRC39 |
1 GenomeRNAi human phenotype for LRRC39:
|
Pathways & Interactions
for LRRC39 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 LRRC39
|
Drugs & Compounds
for LRRC39 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 LRRC39
Search CenterWatch for drugs/clinical trials and news about LRRC39 / LRC39
|
Transcripts
for LRRC39 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 LRRC39 gene (4 alternative transcripts): NM_001256385.1 NM_001256386.1 NM_001256387.1 NM_144620.3 Unigene Cluster for LRRC39: Leucine rich repeat containing 39 Hs.44277 [show with all ESTs]Unigene Representative Sequence: AL8326943 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000370137(uc001dsw.1 uc001dsz.1) ENST00000370138(uc001dsy.1)
ENST00000342895(uc001dsx.1)
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for LRRC39 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for LRRC39 (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: LRRC39 (NM_144620) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for LRRC39 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LRRC39 |
Additional cDNA sequence: AK096892.1 AL832694.1 AL833417.1 AY358131.1 BC009613.1 BC022420.1 12 DOTS entries: DT.121353233 DT.455305 DT.100749582 DT.95263903 DT.101972907 DT.95255421 DT.314053 DT.95296767 DT.212706 DT.97820384 DT.100653913 DT.99984092 24/105 AceView cDNA sequences (see all 105): AA417843 BX117654 AA446687 H82070 N44638 N29791 N33320 BF726947 AA843587 AL711357 AI214827 AK096892 N34751 W06875 BU741059 AW961910 AI298340 AA455442 AV729313 NM_144620 BM692890 BX095205 AI381907 AL599450
GeneLoc Exon Structure
3 Alternative Splicing Database (ASD) splice patterns (SP) for LRRC39 About this scheme
| ExUns: | 1a | · | 1b | · | 1c | ^ | 2 | ^ | 3 | ^ | 4 | ^ | 5 | ^ | 6a | · | 6b | · | 6c | ^ | 7 |
|---|
|
| SP1: | | | | | - | | | | - | | | | | | | | | | | | | | |
| SP2: | | | | | | | | | - | | | | | | | | | | | | | | |
| SP3: | | | | | | | | | | | | | | | | | | | | | | |
ECgene alternative splicing isoforms for LRRC39
|
Expression
for LRRC39 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
| LRRC39 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: GAAGAAATGG
About this image
See LRRC39 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for LRRC39
SOURCE GeneReport for Unigene cluster: Hs.44277
SABiosciences Custom PCR Arrays for LRRC39
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for LRRC39
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat LRRC39 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat LRRC39 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat LRRC39 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LRRC39 |
Orthologs
for LRRC39 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 animals.
Orthologs for LRRC39 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 |
LRRC391 |
leucine rich repeat containing 39 |
71.73(n)
68.99(a) |
|
424469 XM_422312.3 XP_422312.2 |
lizard
(Anolis carolinensis) |
Reptilia |
LRRC396 |
-- |
68(a) |
1 ↔ 1 |
4(87748549-87757223) |
zebrafish
(Danio rerio) |
Actinopterygii |
lrrc391 |
leucine rich repeat containing 39 |
64.14(n)
63.92(a) |
|
550456 NM_001017760.1 NP_001017760.1 |
fruit fly
(Drosophila melanogaster) |
Insecta |
f-cup6 |
flyers-cup |
10(a) |
1 → many |
3R(9520979-9526560) |
ENSEMBL Gene Tree for LRRC39 (if available)
TreeFam Gene Tree for LRRC39 (if available) |
Paralogs
for LRRC39 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for LRRC39 gene
- LRRC72 LRRC22 ERBB2IP2 MFHAS12 LRRC182 LRRC302 LRRC12 PIDD2
- LRRIQ42 SCRIB2 SHOC22 LRRD12 LRRC10B2 LRRC402 LRRC102
2 SIMAP similar genes for LRRC39 using alignment to 1 protein entry: LRC39_HUMAN:LRRC2 LRRC10
LRRC39 for paralogs About GeneDecksing
|
Genomic Variants
for LRRC39 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 LRRC39 (100614409 - 100643771 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for LRRC39: -- | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing LRRC39 |
|
Disorders
/ Diseases
for LRRC39 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
|
 LRRC39 for disorders About MalaCards
LRRC39 for disorders About GeneDecksing
Human Genome Epidemiology (HuGE) Navigator: LRRC39 (1 document)
Export disorders for LRRC39 gene to outside databases
|
Publications
for LRRC39 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 LRRC39 gene integrated from 9 sources:
(articles sorted by number of sources associating them with LRRC39) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309)1, 2, 3 Clark H.F.... Gray A.M. (2003)
- 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)
- Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1 Rose J.E....Uhl G.R. (2010)
- Myomasp/LRRC39, a heart- and muscle-specific protein, is a novel component of the sarcomeric M-band and is involved in stretch sensi ng. (PubMed id 20847312)1 Will R.D....Frey N. (2010)
- The LIFEdb database in 2006. (PubMed id 16381901)1 Mehrle A....Wiemann S. (2006)
- From ORFeome to biology: a functional genomics pipeline. (PubMed id 15489336)1 Wiemann S....Poustka A. (2004)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
- DNA cloning using in vitro site-specific recombination. (PubMed id 11076863)1 Hartley J.L....Brasch M.A. (2000)
|
External Searches for LRRC39 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing LRRC39 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing LRRC39 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing LRRC39 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 LRRC39 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for LRRC39 gene:
Search GeneIP for patents involving LRRC39
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for LRRC39 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
|
 | |
 | |
 |
| | |  | OriGene Antibodies for LRRC39 | | OriGene shRNA RFP for LRRC39 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for LRRC39 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for LRRC39 | | | OriGene Protein Over-expression Lysate for LRRC39 | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for LRRC39 | | Browse 3'-UTR reporter clones for miRNA target validation | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for LRRC39 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for LRRC39 | | | 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 LRRC39 | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
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| |
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| |
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| |  |  |  |  | | | | |
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 | | | LRRC39 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LRRC39 |
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| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LRRC39 |
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