LYSMD1 Gene
protein-coding GIFtS: 40
GCID: GC01M151132
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LysM, putative peptidoglycan-binding, domain containing...
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Aliases
for LYSMD1 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| LysM, Putative Peptidoglycan-Binding, Domain Containing 11 2 | | RP11-68I18.51 2 | | MGC352231 | | SB1451 | | LysM And Putative Peptidoglycan-Binding Domain-Containing Protein 12 |
Export aliases for LYSMD1 gene to outside databasesPrevious GC identifers: GC01M147946 GC01M149398 GC01M122510 |
Summaries
for LYSMD1 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
-- |
Genomic Views
for LYSMD1 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_004487.19
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the LYSMD1 gene promoter:
MZF-1 Sox5 NRSF form 1 Sox9 NRSF form 2 GATA-2
Other transcription factors
Search SABiosciences Chromatin IP Primers for LYSMD1
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat LYSMD1 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 1q21.3 Ensembl cytogenetic band: 1q21.3 HGNC cytogenetic band: 1q21.2LYSMD1 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 GC01M151132: view genomic region
(about GC identifiers)
Start:
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151,132,224 bp from pter |
End:
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151,138,424 bp from pter |
Size:
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6,201 bases |
Orientation:
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minus strand |
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Proteins
for LYSMD1 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: LYSM1_HUMAN, Q96S90 (See
protein sequence)Recommended Name: LysM and putative peptidoglycan-binding domain-containing protein 1 Size: 227 amino acids; 25003 Da
Sequence caution: Sequence=CAH10716.1; Type=Erroneous initiation;
1 PDB 3D structure from  and Proteopedia  for LYSMD1:2DJP (3D)
Secondary accessions: B4DQA1 Q69YX9Alternative splicing: 2 isoforms: Q96S90-1 Q96S90-2 Explore the universe of human proteins at neXtProt for LYSMD1: NX_Q96S90
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q96S90
LYSMD1 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (2 alternative transcripts):
NP_001130015.1 NP_997716.1
ENSEMBL proteins: ENSP00000357904 ENSP00000404059
Human Recombinant Protein Products:
LYSMD1 Antibody Products:
Assay Products for LYSMD1: |
Protein
Domains /
Families
for LYSMD1 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
LYSMD1 for domains About GeneDecksing
2 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q96S90ProtoNet protein and cluster: Q96S90 1 Blocks protein family: IPB002482 Peptidoglycan-binding LysM
UniProtKB/Swiss-Prot: LYSM1_HUMAN, Q96S90Similarity: Contains 1 LysM repeat |
Function
for LYSMD1 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 LYSMD1 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for LYSMD1 (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector (see all 2): LYSMD1 (NM_001136543) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for LYSMD1 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LYSMD1 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LYSMD1 |
|
Pathways & Interactions
for LYSMD1 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 LYSMD1
Gene Ontology (GO): 1 biological process term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0016998 | cell wall macromolecule catabolic process |
IEA | -- |
LYSMD1 for ontologies About GeneDecksing
|
Drugs & Compounds
for LYSMD1 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 LYSMD1
Search CenterWatch for drugs/clinical trials and news about LYSMD1 / LYSM1
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Transcripts
for LYSMD1 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
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REFSEQ mRNAs for LYSMD1 gene (2 alternative transcripts): NM_001136543.1 NM_212551.4 Unigene Cluster for LYSMD1: LysM, putative peptidoglycan-binding, domain containing 1 Hs.591482 [show with all ESTs]Unigene Representative Sequence: NM_2125512 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000368908(uc001ewy.3 uc010pcr.2) ENST00000440902
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for LYSMD1 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for LYSMD1 (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector (see all 2): LYSMD1 (NM_001136543) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for LYSMD1 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LYSMD1 |
Additional cDNA sequence: AK298706.1 AK298814.1 AL122088.1 AY037156.1 BC031649.1 BX647911.1 5 DOTS entries: DT.121409566 DT.313060 DT.70105220 DT.100759523 DT.75113669 23 AceView cDNA sequences: CD359960 BM464339 BC031649 BE348302 BU188407 AI658980 BX355366 AL122088 BI829491 AY037156 NM_212551 BX647911 AW615206 CN478585 BQ879551 BF888368 BI058760 BX361994 AI474548 AI217830 AW015147 AI344968 BE139437
GeneLoc Exon Structure
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Expression
for LYSMD1 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
| LYSMD1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: TTATTGAGGA
About this image
See LYSMD1 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for LYSMD1
SOURCE GeneReport for Unigene cluster: Hs.591482
SABiosciences Custom PCR Arrays for LYSMD1
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for LYSMD1
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat LYSMD1 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat LYSMD1 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat LYSMD1 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LYSMD1 |
Orthologs
for LYSMD1 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 LYSMD1 gene from 3/14 species (see all 14) About this table
| Organism |
Taxonomic
classification |
Gene |
Description |
Human
Similarity |
Orthology
Type |
Details |
lizard
(Anolis carolinensis) |
Reptilia |
LYSMD16 |
-- |
58(a) |
1 ↔ 1 |
GL343668.1(201606-208731) |
zebrafish
(Danio rerio) |
Actinopterygii |
Dr.143882 |
Transcribed sequence with weak similarity to protein more |
71.37(n) |
|
BI673103.1 |
fruit fly
(Drosophila melanogaster) |
Insecta |
CG122076 |
-- |
15(a) |
1 → many |
3R(10114794-10127998) |
ENSEMBL Gene Tree for LYSMD1 (if available)
TreeFam Gene Tree for LYSMD1 (if available) |
Paralogs
for LYSMD1 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for LYSMD1 gene
- LYSMD22
1 SIMAP similar gene for LYSMD1 using alignment to 1 protein entry: LYSM1_HUMAN:LYSMD2
LYSMD1 for paralogs About GeneDecksing
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Genomic Variants
for LYSMD1 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 LYSMD1 (151132224 - 151138424 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for LYSMD1: -- | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing LYSMD1 |
|
Disorders
/ Diseases
for LYSMD1 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 LYSMD1 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 LYSMD1 gene, integrated from 9 sources (see all 11):
(articles sorted by number of sources associating them with LYSMD1) | |  | 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)
- 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)
- Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
- System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)2 Rigbolt K.T....Blagoev B. (2011)
- Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (2010)
- hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (2007)
- The full-ORF clone resource of the German cDNA consortium. (PubMed id 17974005)2 Bechtel S.... Schupp I. (2007)
- Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (2004)
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External Searches for LYSMD1 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
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Genome Databases showing LYSMD1 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing LYSMD1 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing LYSMD1 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 LYSMD1 | Pharmacogenomics, SNPs, Pathways |
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About This Section
| Patent Information for LYSMD1 gene:
Search GeneIP for patents involving LYSMD1
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for LYSMD1 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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 | |
 |
| | |  | Browse OriGene Antibodies | | OriGene shRNA RFP for LYSMD1 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for LYSMD1 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for LYSMD1 | | | OriGene Protein Over-expression Lysate for LYSMD1 | | Browse OriGene Fluorogenic Cell Assay Kits | | | Browse OriGene siRNAs | | OriGene 3'-UTR Clone for LYSMD1 | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for LYSMD1 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for LYSMD1 | | | 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 LYSMD1 | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat LYSMD1 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing LYSMD1 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat LYSMD1 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat LYSMD1 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat LYSMD1 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat LYSMD1 |
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 |  |  |  | |
| | | | Search Tocris compounds for LYSMD1 |
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 | | | LYSMD1 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LYSMD1 |
|  |  |  | | | | ThermoFisher Antibodies for LYSMD1 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LYSMD1 |
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