LYRM4 Gene
protein-coding GIFtS: 48
GCID: GC06M005103
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LYR motif containing 4(Previous name: chromosome 6 open reading frame 149 )
(Previous symbol: C6orf149)
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Aliases
for LYRM4 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| LYR Motif Containing 41 2 | | Chromosome 6 Open Reading Frame 1491 | | C6orf1491 2 3 5 | | Homolog Of Yeast Isd112 | | ISD111 2 3 5 | | LYR Motif-Containing Protein 42 | | CGI-2031 2 | | Mitochondrial Matrix Nfs1 Interacting Protein2 |
Export aliases for LYRM4 gene to outside databasesPrevious GC identifers: GC06M005049 GC06M004983 |
Summaries
for LYRM4 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
UniProtKB/Swiss-Prot: LYRM4_HUMAN, Q9HD34Function: Required for nuclear and mitochondrial iron-sulfur protein biosynthesis
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Genomic Views
for LYRM4 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_000006.11 NC_018917.1 NT_007592.15
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the LYRM4 gene promoter:
HFH-3 HOXA3 Nkx2-2 YY1 FOXI1 Cart-1 FOXO1a Pax-4a FOXO1 En-1
Other transcription factors
Search SABiosciences Chromatin IP Primers for LYRM4
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat LYRM4 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 6p25.1 Ensembl cytogenetic band: 6p25.1 HGNC cytogenetic band: 6p25.1LYRM4 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 6 GeneLoc Exon Structure GeneLoc location for GC06M005103: view genomic region
(about GC identifiers)
Start:
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5,108,653 bp from pter |
End:
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5,261,172 bp from pter |
Size:
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152,520 bases |
Orientation:
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minus strand |
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Proteins
for LYRM4 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: LYRM4_HUMAN, Q9HD34 (See
protein sequence)Recommended Name: LYR motif-containing protein 4 Size: 91 amino acids; 10758 Da
Subunit: Interacts with FXN. Interaction is increased by nickel. Interaction is inhibited by calcium, magnesium,manganese, copper, cobalt, zinc, and iron. Forms a complex with the cytosolic/nuclear form of NFS1. The complexincreased the stability of NFS1
Subcellular location: Mitochondrion. Nucleus
Miscellaneous: Reduction of LYRM4 levels by siRNA increases the total iron content, and reduces cytosolic andmitochondrial aconitase activities and NFS1 protein levels
Secondary accessions: A8K543 Q5XKP1Explore the universe of human proteins at neXtProt for LYRM4: NX_Q9HD34
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q9HD34
LYRM4 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (3 alternative transcripts):
NP_001158312.1 NP_001158313.1 NP_065141.3
ENSEMBL proteins: ENSP00000418321 ENSP00000418787 ENSP00000420026 ENSP00000417885 ENSP00000419928 ENSP00000443900 Reactome Protein details: Q9HD34
Human Recombinant Protein Products:
Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view): About this table
LYRM4 for ontologies About GeneDecksing
LYRM4 Antibody Products:
Assay Products for LYRM4: |
Protein
Domains /
Families
for LYRM4 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
LYRM4 for domains About GeneDecksing
1 InterPro domain/family:Graphical View of Domain Structure for InterPro Entry Q9HD34ProtoNet protein and cluster: Q9HD34 1 Blocks protein family: IPB008011 Complex 1 LYR protein
UniProtKB/Swiss-Prot: LYRM4_HUMAN, Q9HD34Similarity: Belongs to the complex I LYR family |
Function
for LYRM4 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
|
Function Summary:
UniProtKB/Swiss-Prot: LYRM4_HUMAN, Q9HD34Function: Required for nuclear and mitochondrial iron-sulfur protein biosynthesis
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 LYRM4 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for LYRM4 (see all 4)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
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Synthesis Service for LYRM4 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LYRM4 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LYRM4 |
1 GenomeRNAi human phenotype for LYRM4:
|
Pathways & Interactions
for LYRM4 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
|
Unified GeneCards pathways About this table
See pathways by source
| Super-pathway | contained gene-specific pathways |
|---|
| 1 | Mitochondrial Iron-Sulfur Cluster Biogenesis | | | 2 | Metabolism | |
Pathway sources
See GeneCards unified pathways
Show all pathways
3 
Reactome Pathways for LYRM4
UniProtKB/Swiss-Prot: LYRM4_HUMAN, Q9HD34Pathway: Cofactor biosynthesis; iron-sulfur cluster biosynthesis
LYRM4 for pathways About GeneDecksing
Interactions:
SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for LYRM4
STRING Interaction
Network Preview (showing 5 interactants - click image to see 8)
5/8 Interacting proteins for LYRM4 (ENSP000004200264) via UniProtKB, MINT, STRING, and/or I2D (see all 8)
About this table
|
Drugs & Compounds
for LYRM4 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 LYRM4
Search CenterWatch for drugs/clinical trials and news about LYRM4
|
Transcripts
for LYRM4 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 LYRM4 gene (3 alternative transcripts): NM_001164840.1 NM_001164841.1 NM_020408.4 Unigene Cluster for LYRM4: LYR motif containing 4 Hs.387755 [show with all ESTs]Unigene Representative Sequence: NM_0011648418 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000468929 ENST00000330636(uc010jnu.3 uc003mwp.3 uc003mwq.3)
ENST00000464010 ENST00000463032 ENST00000458438 ENST00000480566 ENST00000455814
ENST00000500576(uc021ykw.1)
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for LYRM4 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for LYRM4 (see all 4)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector (see all 3): LYRM4 (NM_020408) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for LYRM4 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LYRM4 |
Additional cDNA sequence: AF088060.1 AF170070.1 AF258559.1 AF285118.1 AK291158.1 AK309458.1 AK309661.1 BC009552.2 BC067762.1 BC105601.1 7 DOTS entries: DT.456023 DT.95102408 DT.97844689 DT.91754311 DT.100785854 DT.401335 DT.95183970 24/190 AceView cDNA sequences (see all 190): BE327186 BE674395 CR620170 BQ011543 Z44785 AI264112 AA973406 BM273251 AA806250 BE551136 AA460551 CK819965 BF223668 AW135277 BM549348 CK819966 AW236845 BQ773920 AA676766 CA311949 BM462091 W77957 AF088060 AF170070
GeneLoc Exon Structure
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Expression
for LYRM4 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
| LYRM4 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image
See LYRM4 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for LYRM4
SOURCE GeneReport for Unigene cluster: Hs.387755
UniProtKB/Swiss-Prot: LYRM4_HUMAN, Q9HD34Tissue specificity: Reduced mRNA levels in Friedreich ataxia patients
SABiosciences Custom PCR Arrays for LYRM4
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for LYRM4
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat LYRM4 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat LYRM4 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat LYRM4 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LYRM4 |
Orthologs
for LYRM4 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 LYRM4 gene from 7/17 species (see all 17) About this table
ENSEMBL Gene Tree for LYRM4 (if available)
TreeFam Gene Tree for LYRM4 (if available) |
Paralogs
for LYRM4 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for LYRM4 gene
18/72 SIMAP similar genes for LYRM4 using alignment to 6 protein entries: LYRM4_HUMAN (see all proteins)
(see all similar genes):ZNF585B C10orf137 CHID1 WARS CRCP DCTN5
FAM3A RNF217 ZNF564 BTBD2 FAM210A ZNF410
NF2 SNX31 TMEM14B TNFRSF17 ZNF212 RBMS2
LYRM4 for paralogs About GeneDecksing
1 Pseudogenes.org Pseudogene for LYRM4
PGOHUM00000244814
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Genomic Variants
for LYRM4 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 6 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for LYRM4 (5108653 - 5261172 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 4 variations for LYRM4
1 CNV: 99412
3 Indels: 64418 69316 47127 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing LYRM4 |
|
Disorders
/ Diseases
for LYRM4 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
|
LYRM4 for disorders About GeneDecksing
OMIM gene information: 613311
OMIM disorders: --
6  diseases for LYRM4: About MalaCardsankylosing spondylitis friedreich ataxia ulcerative colitis spondylitis
crohn's disease ataxia
Human Genome Epidemiology (HuGE) Navigator: LYRM4 (11 documents)
Export disorders for LYRM4 gene to outside databases
|
Publications
for LYRM4 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 LYRM4 gene, integrated from 9 sources (see all 25):
(articles sorted by number of sources associating them with LYRM4) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Mitochondrial frataxin interacts with ISD11 of the NFS1/ISCU complex and multiple mitochondrial chaperones. (PubMed id 17331979)1, 2, 9 Shan Y....Cortopassi G. (2007)
- Human ISD11 is essential for both iron-sulfur cluster assembly and maintenance of normal cellular iron homeostasis. (PubMed id 19454487)1, 2 Shi Y....Rouault T.A. (2009)
- 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)
- The DNA sequence and analysis of human chromosome 6. (PubMed id 14574404)1, 2 Mungall A.J.... Beck S. (2003)
- Identification of the human crooked neck gene by comparative gene identification. (PubMed id 11342225)1, 2 Lai C.-H.... Lin W.-C. (2001)
- Molecular diagnosis of infantile mitochondrial disease with targeted next-generation sequencing. (PubMed id 22277967)1 Calvo S.E.... Mootha V.K. (2012)
- Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
- A data set of human endogenous protein ubiquitination sites. (PubMed id 20972266)1 Shi Y....Qin J. (2011)
- Identification, replication, and fine-mapping of Loci associated with adult height in individuals of african ancestry. (PubMed id 21998595)1 N'Diaye A....Haiman C.A. (2011)
- Evidence for significant overlap between common risk variants for Crohn's disease and ankylosing spondylitis. (PubMed id 21072187)1 Laukens D....De Vos M. (2010)
|
External Searches for LYRM4 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
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Genome Databases showing LYRM4 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing LYRM4 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing LYRM4 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 LYRM4 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for LYRM4 gene:
Search GeneIP for patents involving LYRM4
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for LYRM4 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 LYRM4 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for LYRM4 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for LYRM4 | | | OriGene Protein Over-expression Lysate for LYRM4 | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for LYRM4 | | OriGene 3'-UTR Clone for LYRM4 | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for LYRM4 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for LYRM4 | | | 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 LYRM4 | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling | | | OriGene Custom Antibody Services for LYRM4 | | OriGene Custom Protein Services for LYRM4 | | | OriGene Custom Immunoassay Development | | |
| |
 |
 |
| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat LYRM4 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing LYRM4 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat LYRM4 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat LYRM4 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat LYRM4 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat LYRM4 |
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| | | | Search Tocris compounds for LYRM4 |
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 | | | LYRM4 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for LYRM4 |
|  |  |  | | | | ThermoFisher Antibody for LYRM4 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat LYRM4 |
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