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Category Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21

GIFtS
-

IPW Gene

RNA gene GIFtS: 22
GCID: GC15P025361

imprinted in Prader-Willi syndrome (non-protein coding)

Explore 2 diseases affiliated with
IPW via

MalaCards

our new
Human Malady Compendium

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc, ⁷Ensembl, ⁸DME, ⁹miRBase, and/or ¹⁰fRNAdb)
About This Section

Subcategory (RNA class): lncRNA

Quality score for this RNA gene is 9.2

Aliases
Imprinted In Prader-Willi Syndrome (Non-Protein Coding)¹ ²
NCRNA00002¹ ²

External Ids:	HGNC: 6109¹	Entrez Gene: 3653²	OMIM: 601491⁵

ORGUL members:	fRNAdb¹⁰:FR177478 FR029965 FR003342 FR386509
	H-InvDB:HIT000074825
	NCBI:U12897 AF319524 AF241255
	NONCODE:u4287 n382353 n374562 n342975 n4869	see all 21
	RNAdb:LIT1674 EVF22746 LIT2203 LIT1354

Export aliases for IPW gene to outside databases

Previous GC identifers: GC15U990031 GC15P022909 GC15P022912 GC15P003497

(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 IPW:

This gene is non-protein coding, is expressed exclusively from the paternal allele, and may play a role in the

imprinting process. Mutations in this gene are associated with Prader-Willi syndrome. (provided by RefSeq, May 2010)

fRNAdb sequence ontologies for IPW - the ORGUL cluster for this gene includes several descriptions:
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.
nc_conserved_region - Non-coding region of sequence similarity by descent from a common ancestor.
ncRNA - An RNA transcript that does not encode for a protein rather the RNA molecule is the gene product.

(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:

SABiosciences Regulatory transcription factor binding sites in the IPW gene promoter:
GATA-3 FOXF2 MEF-2 POU3F2 (N-Oct-5a) POU3F2 (N-Oct-5b) POU3F2 YY1 MEF-2A Cart-1 aMEF-2
Other transcription factors

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Search SABiosciences Chromatin IP Primers for IPW

Epigenetics:

QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat IPW

Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 15q11-q12 HGNC cytogenetic band: 15q11-q12

IPW Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
IPW gene location

GeneLoc information about chromosome 15 GeneLoc Exon Structure

GeneLoc location for GC15P025361: view genomic region (about GC identifiers)

Start:	25,361,692 bp from pter	End:	25,367,623 bp from pter
Size:	5,932 bases	Orientation:	plus strand

ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for IPW

(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: --

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

(According to ¹UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or ²DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory,
bound targets from 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

Molecular Function:

Genatlas biochemistry entry for IPW:

paternally expressed gene,imprinted in Prader-Willi region,may be the same as Par-1 or 7 (see PWCR)

Phenotypes:
1 GenomeRNAi human phenotype for IPW:

Synthetic lethal with Ras

Animal Models:

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(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 Central^TM Interacting Genes and Proteins Networks for IPW

(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

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Search CenterWatch for drugs/clinical trials and news about IPW

(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,
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About This Section

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1 AceView cDNA sequence:

T34179

GeneLoc Exon Structure

(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

Expression evidence for IPW:RNAdb

IPW expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --

About this image
Genevestigator expression for IPW
SABiosciences Custom PCR Arrays for IPW

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In Situ
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(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 human and mouse.

Orthologs for IPW gene from 1 species (see representative species ) About this table

Organism	Taxonomic classification	Gene	Description	Human Similarity	Orthology Type	Details
mouse (Mus musculus)	Mammalia	Ipw⁵	imprinted gene in the Prader-Willi syndrome region	--		7 (34.00 cM) 59619158

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68)
About This Section

(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

SNP ID	Valid	Clinical significance	Chr 15 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
Genomic Data					Transcription Related Data				Allele Frequencies
				--	--	--		--	--
rs76625344^1,2	F	--	3496783(+)	`ATGAGA/TACTTG`	1	--	us2k¹		1		WA	118
rs79638673^1,2	F	--	3496808(+)	`AGTGAT/CAGGCT`	1	--	us2k¹		1		WA	118
rs76651197^1,2	C,F	--	3497003(+)	`TAGATG/ATGATA`	1	--	us2k¹		3		NA	124
rs11639415^1,2	C,F,H	--	3497100(+)	`ACATTG/ATGATA`	1	--	us2k¹		14		NS EA NA CSA WA	1528
rs17115254^1,2	C,F,H	--	3497315(+)	`AGGACA/CATTGA`	1	--	us2k¹		8		NA NS EA	680
rs17115255^1,2	C,F,H	--	3497516(+)	`TTATCA/GTATCT`	1	--	us2k¹		15		NA NS EA WA CSA	812
rs28634619^1,2		--	3497553(+)	`TGAAAA/GTGATT`	1	--	us2k¹		0	--	--	--	--
rs28481747^1,2	C,F	--	3497752(+)	`AGATAC/TTTAGA`	1	--	nc-transcript-variant		7		NA WA CSA	248
rs62002011^1,2	F	--	3497834(+)	`GTGGAA/GTTCTT`	1	--	nc-transcript-variant		4		NA CSA WA	242
rs62002012^1,2	C,F	--	3497928(+)	`ACACTC/TAGTCT`	1	--	nc-transcript-variant		5		NA CSA WA	244

HapMap Linkage Disequilibrium report for IPW (25361692 - 25367623 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for IPW: --

SABiosciences Cancer Mutation PCR Assays

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section

IPW for disorders           About GeneDecksing

OMIM gene information: 601491    OMIM disorders: --

2 diseases for IPW:    About MalaCards

prader-willi syndrome angelman syndrome

1 Novoseek disease relationship for IPW gene About this table

Disease	-log (P-Val)	Hits	PubMed IDs for Articles with Shared Sentences (# sentences)
prader-willi syndrome	86.3	5	8895514 (1), 9311744 (1), 8872030 (1), 9601023 (1)

Export disorders for IPW gene to outside databases

(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 IPW gene, integrated from 9 sources (see all 23):
(articles sorted by number of sources associating them with IPW)

Utopia: connect your pdf to the dynamic
world of online information

Imprinted genes in the Prader-Willi deletion. (PubMed id 9601023)^{1, 3, 9} Francke U. (1998)
Identification of a novel paternally expressed gene in the Prader-Willi syndrome region. (PubMed id 7849716)^{1, 3} Wevrick R....Francke U. (1994)
Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. (PubMed id 15146197)¹ Brandenberger R.... Stanton L.W. (2004)
Prader-Willi Syndrome (PubMed id 20301505)¹ Driscoll D.J....Cassidy S.B. (1993)
Characterization of the imprinted IPW gene: allelic expression in normal and tumorigenic human tissues. (PubMed id 8895514)⁹ Rachmilewitz J....Hochberg A. (1996)
Clonal maintenance of imprinted expression of SNRPN and IPW in normal lymphocytes: correlation with allele-specific methylation of SNRPN intron 1 but not intron 7. (PubMed id 11281449)⁹ Balmer D. and LaSalle J.M. (2001)
Balanced translocation 46,XY,t(2;15)(q37.2;q11.2) associated with atypical Prader-Willi syndrome. (PubMed id 9311744)⁹ Conroy J.M....Schwartz S. (1997)
Minimal definition of the imprinting center and fixation of chromosome 15q11-q13 epigenotype by imprinting mutations. (PubMed id 8755558)⁹ Saitoh S....Nicholls R.D. (1996)
The IPW gene is imprinted and is not expressed in the Prader-Willi syndrome. (PubMed id 8872030)⁹ Wevrick R....Francke U. (1996)
Association of acetylated histones with paternally expressed genes in the Prader--Willi deletion region. (PubMed id 11230184)⁹ Fulmer-Smentek S.B. and Francke U. (2001)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section

		AND	OR
Aliases
Disorders
Free Text

Query String		PubMed OMIM NCBI Bookshelf
	(Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section

Entrez Gene: 3653	HGNC: 6109	AceView: IPW.2	euGenes: HUgn3653	ECgene: IPW
H-InvDB: IPW

(According to HUGE)
About This Section

(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 IPW	Pharmacogenomics, SNPs, Pathways

Intellectual Property for IPW gene
(Patent information from GeneIP, Licensable technologies from WIS Yeda, Salk, Tufts, IP news from LifeMap Sciences, Inc.)

About This Section

Patent Information for IPW gene:
Search GeneIP for patents involving IPW

GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search

(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
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IPW Gene

imprinted in Prader-Willi syndrome (non-protein coding)

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IPW Gene

imprinted in Prader-Willi syndrome (non-protein coding)

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