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IFITM4P Gene

pseudogene   GIFtS: 23
GCID: GC06M029743

Interferon Induced Transmembrane Protein 4 Pseudogene

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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Interferon Induced Transmembrane Protein 4 Pseudogene1 2
dJ377H14.52

External Ids:    HGNC: 216691   Entrez Gene: 3401982   Ensembl: ENSG000002358217   
ORGUL members:         

Export aliases for IFITM4P gene to outside databases

Previous GC identifers: GC06M029826 GC06M029719 GC06M029522 GC06M029720 GC06M029723 GC06M029728 GC06M029736


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for IFITM4P Gene:
IFITM4P (interferon induced transmembrane protein 4 pseudogene) is a pseudogene, and is affiliated with the lncRNA class.


(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000006.11  NC_018917.2  NT_007592.16  NT_113891.3  NT_167245.2  NT_167246.2  NT_167247.2  NT_167248.2  
NT_167249.2  
Regulatory elements:
   Search for regulatory transcription factor binding sites for IFITM4P
         Other transcription factors

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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat IFITM4P


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

Entrez Gene cytogenetic band: 6p22.1   Ensembl cytogenetic band:  6p22.1   HGNC cytogenetic band: 6p22.1

IFITM4P Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
IFITM4P gene location

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06M029743:  view genomic region     (about GC identifiers)

Start:
29,718,506 bp from pter      End:
29,718,925 bp from pter
Size:
420 bases      Orientation:
minus strand

6 alternative locations:
Chr6-,NT_113891.2 1,234,756-1,235,098      Chr6-,NT_167246 1,019,089-1,019,431      Chr6-,NT_167249 1,056,331-1,056,673     
Chr6-,NT_167245 1,019,459-1,019,801      Chr6-,NT_167247 1,019,118-1,019,459      Chr6-,NT_167248 1,019,444-1,019,786     
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for IFITM4P

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB: --


(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Animal Models:
   genOway: Develop your customized and physiologically relevant rodent model for IFITM4P

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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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  --

(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, 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 Apr 2014 via Entrez Gene).
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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for IFITM4P
Interactions:

    Search GeneGlobe Interaction Network for IFITM4P

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
   Browse drugs & compounds from Enzo Life Sciences
  Browse compounds at ApexBio 

Browse Tocris compounds for IFITM4P



(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 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,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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Unigene Cluster for IFITM4P:

Interferon induced transmembrane protein 4 pseudogene
Hs.450189  [show with all ESTs]
Unigene Representative Sequence: DB311150
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000441380(uc003nnr.3)
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Additional mRNA sequence: NR_001590.1 

1 DOTS entry:

DT.97800652 

3 AceView cDNA sequences:

NR_001590 BM991882 BV188856 

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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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IFITM4P expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
IFITM4P Expression
About this image

IFITM4P Protein expression data from MOPED1, PaxDb2 and MaxQB3 --

SOURCE GeneReport for Unigene cluster: Hs.450189
    Custom PCR Arrays for IFITM4P
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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)
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  --

ENSEMBL Gene Tree for IFITM4P (if available)
TreeFam Gene Tree for IFITM4P (if available)

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

(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for IFITM4P (see all 55)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 6 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1861216971,2
--29638939(+) CCCGAG/TTGTGG 1 -- us2k10--------
rs563042491,2
--29718869(+) GGGGGC/TGGGGG 1 -- nc-transcript-variant0--------
rs1161655421,2
C,F--29718883(+) GCAGCC/TACTGT 1 -- nc-transcript-variant1Minor allele frequency- T:0.04WA 118
rs558840481,2
C,F--29718955(+) GTCAGG/ATTGCT 1 -- us2k11Minor allele frequency- A:0.06EA 120
rs1817124761,2
--29718992(+) TGTACA/GTTTTT 1 -- us2k10--------
rs1866726801,2
--29719012(+) ATTACA/GTGGCA 1 -- us2k10--------
rs1113249501,2
C--29719032(+) TATCTC/TGATAA 1 -- us2k12Minor allele frequency- T:0.04CSA WA 120
rs1145563231,2
F--29719096(+) ACACAC/TGTCTC 1 -- us2k11Minor allele frequency- T:0.01NA 120
rs2016543011,2
C--29719162(+) ACCTGA/GAGAGT 1 -- us2k10--------
rs1140388401,2
F--29719190(+) CCAGGT/CCACAG 1 -- us2k12Minor allele frequency- C:0.08WA EA 238

HapMap Linkage Disequilibrium report for IFITM4P (29718506 - 29718925 bp)

Structural Variations
     Database of Genomic Variants (DGV) 8 variations for IFITM4P:    About this table    
Variant IDTypeSubtypePubMed ID
esv2731768CNV Deletion23290073
dgv1039e201CNV Deletion23290073
nsv508397CNV Loss20534489
nsv883534CNV Loss21882294
nsv883532CNV Loss21882294
nsv10809CNV Gain18304495
nsv428139CNV Gain18775914
esv25966CNV Gain+Loss19812545

Site Specific Mutation Identification with PCR Assays
Search QIAGEN SeqTarget long-range PCR primers for resequencing IFITM4P
DNA2.0 Custom Variant and Variant Library Synthesis for IFITM4P

(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.)
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Find genes that share disorders with IFITM4P           About GenesLikeMe

Genetic Association Database (GAD): IFITM4P

Export disorders for IFITM4P 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)
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PubMed articles for IFITM4P gene integrated from 10 sources:
(articles sorted by number of sources associating them with IFITM4P)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The broad-spectrum antiviral functions of IFIT and IFITM proteins. (PubMed id 23237964)1 Diamond M.S. and Farzan M. (Nat. Rev. Immunol. 2013)
  2. A genome-wide scan of Ashkenazi Jewish Crohn's disease suggests novel susceptibility loci. (PubMed id 22412388)4 Kenny E.E....Peter I. (PLoS Genet. 2012)
  3. Genome-wide association study identifies variants in the MHC class I, IL10, and IL23R-IL12RB2 regions associated with BehAset's disease. (PubMed id 20622878)4 Remmers E.F....GA1l A. (Nat. Genet. 2010)
  4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (Genome Res. 2006)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
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)
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Entrez Gene: 340198 HGNC: 21669 AceView: IFITM4P Ensembl:ENSG00000235821 euGenes: HUgn340198
ECgene: IFITM4P H-InvDB: IFITM4P

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for IFITM4P Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for IFITM4P gene:
Search GeneIP for patents involving IFITM4P

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, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from genOway)
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