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Aliasesfor CLRN1-AS1 gene
(According to
1 HGNC ,
2 Entrez Gene ,
3 UniProtKB/Swiss-Prot ,
4 UniProtKB/TrEMBL , 5 OMIM , 6 GeneLoc ,
7 Ensembl ,
8 DME ,
9 miRBase ,
and/or 10 fRNAdb )About This Section Subcategory (RNA class): lncRNAQuality score for this RNA gene is 5 Aliases CLRN1 Antisense RNA 1 1 2 CLRN1OS1 2 UCRP1 2 Clarin 1 Opposite Strand1 CLRN1 Antisense RNA 1 (Non-Protein Coding)1
External Ids: HGNC: 30895 1 Entrez Gene: 116933 2 Ensembl: ENSG00000239265 7 Export aliases for CLRN1-AS1 gene to outside databases
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Summariesfor CLRN1-AS1 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 CLRN1-AS1 fRNAdb sequence ontology for CLRN1-AS1: mature_transcript - A transcript which has undergone the necessary modifications, if any, for its function. In eukaryotes this includes, for example, processing of introns, cleavage, base modification, and modifications to the 5' and/or the 3' ends, other than addition of bases. In bacteria functional mRNAs are usually not modified.
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Genomic Viewsfor CLRN1-AS1 gene
(According to
GeneLoc and/or
HGNC , and/or
Entrez Gene (NCBI build 37) ,miRBase ,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_000003.11 NC_018914.1 NT_005612.16 Regulatory elements: Search SABiosciences Regulatory transcription factor binding sites for CLRN1-AS1 Other transcription factors Search SABiosciences Chromatin IP Primers for CLRN1-AS1 Epigenetics: QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CLRN1-AS1
Genomic Location: Genomic View : UCSC Golden Path with GeneCards custom track Entrez Gene cytogenetic band: 3q25.1 Ensembl cytogenetic band: 3q25.1 HGNC cytogenetic band: 3q25.1 CLRN1-AS1 Gene in genomic location: bands according to Ensembl, locations according to
Entrez Gene Ensembl GeneLoc information about chromosome 3 GeneLoc Exon Structure
GeneLoc location for GC03P150571: view genomic region
(about GC identifiers )
Start: 150,570,271 bp from pter End:
150,798,513 bp from pter
Size: 228,243 bases Orientation:
plus strand
ORGUL member locations:Legend (see complete legend)
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Proteinsfor CLRN1-AS1 gene
(According to
1 UniProtKB ,
HORDE ,
neXtProt ,
Ensembl ,
and/or Reactome ,
Modification sites according to 2 PhosphoSitePlus ,
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 ,
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: --
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Protein
Domains /for CLRN1-AS1 gene (According to InterPro , ProtoNet ,
UniProtKB , and/or BLOCKS ,
Sets of similar genes according to GeneDecks )
About This Section
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Functionfor CLRN1-AS1 gene
(According to 1 UniProtKB ,
Genatlas ,
LifeMap Discovery™ ,
IUBMB , and/or
2 DME ,
Human phenotypes from GenomeRNAi ,
Animal models from MGI Mar 06 2013,
inGenious Targeting Laboratory ,
SABiosciences ,
miRNA Gene Targets from miRTarBase ,
shRNA from
OriGene ,
Sirion Biotech ,
RNAi from
EMD Millipore ,
siRNAs from
OriGene ,
QIAGEN ,
microRNA from QIAGEN ,
Gene Editing from DNA2.0 ,
Sirion Biotech ,
Clones from EMD Millipore ,
OriGene ,
SwitchGear Genomics ,
GenScript ,
Sino Biological ,
DNA2.0 ,
and Vector BioLabs ,
Cell Lines from GenScript ,
LifeMap BioReagents ,
Sirion Biotech ,
In Situ Hybridization Assays from Advanced Cell Diagnostics ,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene .)
About This Section Animal Models: Cell Line GenScript Custom overexpressing Cell Line Services for CLRN1-AS1 Search LifeMap BioReagents cell lines for CLRN1-AS1 In Situ AssayAdvanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CLRN1-AS1
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Pathways & Interactionsfor CLRN1-AS1 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 1 UniProtKB ,
2 MINT ,
3 I2D , and/or
4 STRING ,
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 CLRN1-AS1
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Drugs & Compoundsfor CLRN1-AS1 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 CLRN1-AS1 CLRN1-AS1
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Transcriptsfor CLRN1-AS1 gene (Secondary structures according to
fRNAdb ,Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank , Entrez Gene ,
DOTS (version 10), and/or
AceView ,
transcript ids from Ensembl
with links to UCSC , GeneLoc ,
alternative splicing isoforms according to ASD and/or
ECgene ,EMD Millipore ,
OriGene ,
QIAGEN ,
shRNA from
OriGene ,
Sirion Biotech ,
microRNA from QIAGEN ,
OriGene ,
SwitchGear Genomics ,
GenScript ,
DNA2.0 ,
Vector BioLabs ,
Primers from
OriGene ,
SABiosciences , and/or
QIAGEN
)About This Section Unigene Cluster for CLRN1-AS1:
CLRN1 antisense RNA 1 Hs.570680 [show with all ESTs ] Unigene Representative Sequence: AK126442 2 Ensembl transcripts including schematic representations, and UCSC links where relevant : ENST00000476886 (uc011bny.1 ) ENST00000465576 (uc003eyl.2 ) Additional cDNA sequence: AF388367.1 AK126442.1 NR_024066.1
2 DOTS entries : DT.91893080 DT.100001565 GeneLoc Exon Structure
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Expression for CLRN1-AS1 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 ,SABiosciences ,
Primers from
OriGene ,
SABiosciences , and/or
QIAGEN ,
In Situ Hybridization Assays from Advanced Cell Diagnostics )
About This Section Expression evidence for CLRN1-AS1:RNAdb
CLRN1-AS1 expression in normal human tissues (normalized intensities) See probesets specificity/sensitivity at GeneAnnot About this image BioGPS CGAP TAG: AAATGCAAAAAbout this image Genevestigator expression for CLRN1-AS1 SOURCE GeneReport for Unigene cluster: Hs.570680 SABiosciences Custom PCR Arrays for CLRN1-AS1
Primer 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 CLRN1-AS1 Search QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat CLRN1-AS1 QIAGEN QuantiFast Probe-based Assays in human mouse rat In Situ Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CLRN1-AS1
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Orthologsfor CLRN1-AS1 gene
(Orthologs according to
1,2 HomoloGene (2 older version, for species not in 1 newer version),
3 euGenes ,
4 SGD
,
5 MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase ,
and/or
6 Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam )
About This Section
ENSEMBL Gene Tree for CLRN1-AS1 (if available)TreeFam Gene Tree for CLRN1-AS1 (if available)
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Paralogsfor CLRN1-AS1 gene (Paralogs according to
1 HomoloGene ,2 Ensembl , and 3 SIMAP , Pseudogenes according to 4 Pseudogene.org Build 68)About This Section
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Genomic Variantsfor CLRN1-AS1 gene (SNPs/Variants according to the
1 NCBI SNP Database ,
2 Ensembl ,
3 PupaSUITE ,
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 Chr 3 pos Sequence # AA Type More # Allele Pop Total More
HapMap Linkage Disequilibrium report for CLRN1-AS1 (150570271 - 150798513 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions) Database of Genomic Variants (DGV) variations for CLRN1-AS1: --
SABiosciences Cancer Mutation PCR Assays
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Disorders
/ Diseasesfor CLRN1-AS1 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 About GeneDecksing OMIM information: 606397 2 : About MalaCards usher syndrome type 3 usher syndrome Export disorders for CLRN1-AS1 gene to outside databases
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Publicationsfor CLRN1-AS1 gene (in
PubMed .
Associations of this gene to articles via
1 Entrez Gene ,
2 UniProtKB/Swiss-Prot ,
3 HGNC ,
4 GAD ,
5 PharmGKB ,
6 HMDB ,
7 DrugBank ,
8 UniProtKB/TrEMBL ,
9 Novoseek , and/or
10 fRNAdb )
About This Section PubMed articles for CLRN1-AS1 gene integrated from 9 sources :(articles sorted by number of sources associating them with CLRN1-AS1) Utopia : connect your pdf to the dynamic
Mutations in a novel gene with transmembrane domains underlie Usher syndrome type 3. (PubMed id 11524702) 1 , 3(2001) Alternative splice variants of the USH3A gene Clarin 1 (CLRN1). (PubMed id 20717163) 1 (2010) Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039) 1 (2004) Down-regulation of UCRP and UBE2L6 in BRCA2 knocked-down human breast cells. (PubMed id 15670748) 9 Tripathi M.K. and Chaudhuri G. (2005) (PubMed id 15608161) 10
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External Searches for CLRN1-AS1 gene
(in PubMed ,
OMIM , and NCBI Bookshelf ) About This Section
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Genome Databases showing CLRN1-AS1 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 CLRN1-AS1 gene
(According to HUGE )
About This Section --
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Specialized Databases showing CLRN1-AS1 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
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About This Section Patent Information for CLRN1-AS1 gene: CLRN1-AS1 GeneCards and IP: Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
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Productsfor CLRN1-AS1 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 and Sirion Biotech , Clones from EMD Millipore , OriGene , GenScript , Sino Biological , DNA2.0 , SwitchGear Genomics , Vector BioLabs , Cell lines from GenScript , LifeMap BioReagents , and Sirion Biotech , 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 , Animal models from inGenious Targeting Laboratory )About This Section
QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat CLRN1-AS1 Search QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing CLRN1-AS1 QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CLRN1-AS1 QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human mouse rat QIAGEN QuantiFast Probe-based Assays in human mouse rat Search QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat CLRN1-AS1
CLRN1-AS1 Proteins, Antibodies, CLIAs, and ELISAs
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CLRN1-AS1
Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat CLRN1-AS1
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