MSH5-SAPCD1 Gene
protein-coding GIFtS: 23
GCID: GC06P031714
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MSH5-SAPCD1 readthrough (non-protein coding)(Previous name: MSH5-C6orf26 readthrough (non-protein coding) )
(Previous symbol: MSH5-C6orf26)
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Aliases
for MSH5-SAPCD1 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA
Quality score for the ORGUL clustered with this gene is 4
| Aliases |
|---|
| MSH5-SAPCD1 Readthrough (Non-Protein Coding)1 2 | | MSH5-C6orf261 2 | | MSH5-C6orf26 Readthrough (Non-Protein Coding)1 | | MSH54 | | Protein MSH5-SAPCD14 | | Uncharacterized Protein4 |
| External Ids: | HGNC: 419941 | Entrez Gene: 1005327322 | Ensembl: ENSG000002551527 | UniProtKB: A2BEX44 | UniProtKB: E9PGY44 |
|---|
| UniProtKB: H0YEB24 | UniProtKB: H0YF114 |
Export aliases for MSH5-SAPCD1 gene to outside databasesPrevious GC identifer: GC06P031708
Summaries
for MSH5-SAPCD1 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 MSH5-SAPCD1:
This locus represents naturally occurring read-through transcription between the neighboring mutS homolog 5 (MSH5) andchromosome 6 open reading frame 26 (C6orf26) genes. The read-through transcript is a candidate for nonsense-mediatedmRNA decay (NMD), and is thus unlikely to produce a protein product. (provided by RefSeq, Feb 2011)
fRNAdb sequence ontology for MSH5-SAPCD1:
ncRNA - An RNA transcript that does not encode for a protein rather the RNA molecule is the gene product.
View fRNAdb secondary structures for MSH5-SAPCD1 |
Genomic Views
for MSH5-SAPCD1 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
| Regulatory elements:
 Search SABiosciences Regulatory transcription factor binding sites for MSH5-SAPCD1
Other transcription factors
Search SABiosciences Chromatin IP Primers for MSH5-SAPCD1
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat MSH5-SAPCD1 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 6p Ensembl cytogenetic band: 6p21.33 HGNC cytogenetic band: 6p21.33MSH5-SAPCD1 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 GC06P031714: view genomic region
(about GC identifiers)
Start:
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31,707,797 bp from pter |
End:
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31,732,628 bp from pter |
Size:
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24,832 bases |
Orientation:
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plus strand |
ORGUL member locations:
Legend (see complete legend)
31707724 31720174 31732624 chr6
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Proteins
for MSH5-SAPCD1 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/TrEMBL: A2BEX4 (See
protein sequence)Recommended Name: MutS protein homolog 5 Size: 496 amino acids; 54659 Da
Caution: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered aspreliminary dataUniProtKB/TrEMBL: E9PGY4 (See
protein sequence) Recommended Name: MutS protein homolog 5 Size: 271 amino acids; 29608 DaUniProtKB/TrEMBL: H0YEB2 (See
protein sequence) Recommended Name: Protein MSH5-SAPCD1 Size: 29 amino acids; 3229 Da
Caution: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered aspreliminary dataUniProtKB/TrEMBL: H0YF11 (See
protein sequence) Recommended Name: Protein MSH5-SAPCD1 Size: 264 amino acids; 28741 Da
Caution: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered aspreliminary dataMSH5-SAPCD1 Protein expression data from MOPED and PaxDb: --
ENSEMBL proteins: ENSP00000417871 ENSP00000419220 ENSP00000435414
Human Recombinant Protein Products:
MSH5-SAPCD1 Antibody Products:
Assay Products for MSH5-SAPCD1: |
Protein
Domains /
Families
for MSH5-SAPCD1 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
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MSH5-SAPCD1 for domains About GeneDecksing
3 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry A2BEX4Graphical View of Domain Structure for InterPro Entry E9PGY4Graphical View of Domain Structure for InterPro Entry H0YEB2Graphical View of Domain Structure for InterPro Entry H0YF11ProtoNet protein and cluster: A2BEX4 UniProtKB/TrEMBL: A2BEX4 Similarity: Belongs to the DNA mismatch repair MutS family |
Function
for MSH5-SAPCD1 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
|
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for MSH5-SAPCD1 |
Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005524 | ATP binding |
-- | -- | | GO:0030983 | mismatched DNA binding |
-- | -- |
MSH5-SAPCD1 for ontologies About GeneDecksing
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Pathways & Interactions
for MSH5-SAPCD1 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
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Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for MSH5-SAPCD1
Gene Ontology (GO): 1 biological process term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
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| GO:0006298 | mismatch repair |
-- | -- |
MSH5-SAPCD1 for ontologies About GeneDecksing
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Drugs & Compounds
for MSH5-SAPCD1 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 MSH5-SAPCD1
Search CenterWatch for drugs/clinical trials and news about MSH5-SAPCD1 
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Transcripts
for MSH5-SAPCD1 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
| 1 fRNAdb Secondary structure:
4 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000493662 ENST00000498473(uc003nwz.4) ENST00000491552 ENST00000476085
GeneLoc Exon Structure
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Expression
for MSH5-SAPCD1 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
| MSH5-SAPCD1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image SABiosciences Custom PCR Arrays for MSH5-SAPCD1
Primer
Products: |  | Browse OriGene genome-wide validated SYBR primer pairs
Browse OriGene validated miRNA SYBR primer pairs
| | | Search SABiosciences RT2 qPCR
Primer Assays in human, mouse, rat MSH5-SAPCD1 | | | Search QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat MSH5-SAPCD1 | | | Search QIAGEN QuantiFast Probe-based Assays in human, mouse, rat MSH5-SAPCD1 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for MSH5-SAPCD1 |
Orthologs
for MSH5-SAPCD1 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 last universal common ancestor (LUCA).
Orthologs for MSH5-SAPCD1 gene from 8/23 species (see all 23) About this table
| Organism |
Taxonomic
classification |
Gene |
Description |
Human
Similarity |
Orthology
Type |
Details |
chicken
(Gallus gallus) |
Aves |
F1N8B7_CHICK6 |
Uncharacterized protein |
67(a) |
1 → many |
3(59493840-59496215) |
lizard
(Anolis carolinensis) |
Reptilia |
-- |
-- |
66(a) |
1 → many |
1(204006023-204008419) |
zebrafish
(Danio rerio) |
Actinopterygii |
CU695006.16 |
-- |
58(a) |
1 → many |
15(38575684-38577979) |
honey bee
(Apis mellifera) |
Insecta |
-- |
-- |
18(a) |
1 → many |
Group5.28(355632-365282) |
worm
(Caenorhabditis elegans) |
Secernentea |
msh-56 |
MutS protein homolog 5 |
11(a) |
1 → many |
IV(13155204-13164028) |
thale cress
(Arabidopsis thaliana) |
eudicotyledons |
ATMSH56 |
DNA mismatch repair protein MSH5 |
28(a) |
1 → many |
3(7143454-7151014) |
rice
(Oryza sativa) |
Liliopsida |
-- |
mutS domain V family protein, expressed |
23(a) |
1 → many |
5(24460316-24469711) |
E. coli
(Escherichia coli) |
Gamma proteobacteria |
mutS6 |
methyl-directed mismatch repair protein |
17(a) |
possible ortholog |
Chromosome(2855115-2857676) |
ENSEMBL Gene Tree for MSH5-SAPCD1 (if available)
TreeFam Gene Tree for MSH5-SAPCD1 (if available) |
Paralogs
for MSH5-SAPCD1 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for MSH5-SAPCD1 gene
- MSH52
5 SIMAP similar genes for MSH5-SAPCD1 using alignment to 4 protein entries: A2BEX4_HUMAN (see all proteins):DKFZp434C1615 G7 MSH5 MSH2 MSH6
MSH5-SAPCD1 for paralogs About GeneDecksing
|
Genomic Variants
for MSH5-SAPCD1 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
| | SABiosciences Cancer Mutation PCR Assays |
|
Disorders
/ Diseases
for MSH5-SAPCD1 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
|
MSH5-SAPCD1 for disorders About GeneDecksing
OMIM gene information: 122550 143400 604519 608545 603382
1  disease for MSH5-SAPCD1: About MalaCardspneumonia
Export disorders for MSH5-SAPCD1 gene to outside databases
|
Publications
for MSH5-SAPCD1 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 MSH5-SAPCD1 gene integrated from 9 sources:
(articles sorted by number of sources associating them with MSH5-SAPCD1) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Expression of conjoined genes: another mechanism for gene regulation in eukaryotes. (PubMed id 20967262)1 Prakash T....Taylor T.D. (2010)
- Localization of eight additional genes in the human major histocompatibility complex, including the gene encoding the casein kinase II beta subunit (CSNK2B). (PubMed id 8812450)1 Albertella M.R.... Campbell R.D. (1996)
- Identification of multiple HTF-island associated genes in the human major histocompatibility complex class III region. (PubMed id 2477242)1 Sargent C.A.... Campbell R.D. (1989)
- (PubMed id 15103394)10
- (PubMed id 18089548)10
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External Searches for MSH5-SAPCD1 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
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Genome Databases showing MSH5-SAPCD1 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
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Other Databases showing MSH5-SAPCD1 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing MSH5-SAPCD1 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
|
|
About This Section
| Patent Information for MSH5-SAPCD1 gene:
Search GeneIP for patents involving MSH5-SAPCD1
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for MSH5-SAPCD1 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 MSH5-SAPCD1 | | | Search QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing MSH5-SAPCD1 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat MSH5-SAPCD1 | | | Search QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat MSH5-SAPCD1 | | | Search QIAGEN QuantiFast Probe-based Assays in human, mouse, rat MSH5-SAPCD1 | | | Search QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat MSH5-SAPCD1 |
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 | | | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for MSH5-SAPCD1 |
|  |  |  | | | | | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat MSH5-SAPCD1 |
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