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FAM138E Gene

RNA gene GIFtS: 17
GCID: GC15P102495

Family With Sequence Similarity 138, Member E

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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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Subcategory (RNA class): lncRNA

Quality score for this RNA gene is 3

Aliases
Family With Sequence Similarity 138, Member E¹ ²
F379²

External Ids:	HGNC: 32335¹	Entrez Gene: 100124412²	Ensembl: ENSG00000248893⁷

ORGUL members:

Export aliases for FAM138E gene to outside databases

Previous GC identifers: GC15U900755 GC19M000029 GC19M000077

(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 FAM138E Gene:

FAM138E (family with sequence similarity 138, member E) is an RNA gene, 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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Regulatory elements:

Regulatory transcription factor binding sites in the FAM138E gene promoter:
Sox5 CUTL1 E4BP4 FOXL1 POU2F1 POU2F1b POU2F1a Sox9 POU2F1c Pax-4a
Other transcription factors

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Epigenetics:

DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat FAM138E

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

Entrez Gene cytogenetic band: 15q26.3 Ensembl cytogenetic band: 15q26.3 HGNC cytogenetic band: 15q26.3

FAM138E Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
FAM138E gene location

GeneLoc information about chromosome 15 GeneLoc Exon Structure

GeneLoc location for GC15P102495: view genomic region (about GC identifiers)

Start:	102,495,088 bp from pter	End:	102,496,615 bp from pter
Size:	1,528 bases	Orientation:	plus strand

(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,
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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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HGNC Gene Families:

LNCRNA: Long non-coding RNAs

(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:

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In Situ Assay
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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 FAM138E
Interactions:

Search GeneGlobe Interaction Network for FAM138E

(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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(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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2 Ensembl transcripts including schematic representations, and UCSC links where relevant:

ENST00000507796(lincRNA)(uc010bpi.3) ENST00000559252(lincRNA)

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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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Expression evidence for FAM138E:none

FAM138E expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>^2/3
CGAP TAG: --

About this image

FAM138E Protein expression data from MOPED¹, PaxDb² and MaxQB³:

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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 FAM138E (if available)
TreeFam Gene Tree for FAM138E (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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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
				--	--	--		--	--
rs200139808^1,2	C	--	102494098(+)	`TAAATA/GTTTTC`	1	--	us2k¹		0	--	--	--	--
rs201079148^1,2	C	--	102494317(+)	`CAGCAC/GCCTCC`	1	--	us2k¹		0	--	--	--	--
rs202026594^1,2		--	102494333(+)	`AGTTT-/CCCTCC`	1	--	us2k¹		0	--	--	--	--
rs200096714^1,2	C	--	102494827(+)	`ACTTTA/GAATCT`	1	--	us2k¹		0	--	--	--	--
rs201594181^1,2	F	--	102495411(+)	`GCTTCA/CTGAAG`	1	--	nc-transcript-variant		1		EU	483
rs200287037^1,2		--	102495662(+)	`TTCTT-/TTTA TTTAT`	1	--	int¹		0	--	--	--	--
rs142988215^1,2		--	102495691(+)	`AGAGAC/GAAAGA`	1	--	nc-transcript-variant		0	--	--	--	--
rs201028948^1,2	F	--	102495918(+)	`ATGTAT/CTTTGA`	1	--	int¹		1		EU	473
rs200764984^1,2	--	--	102494379(+)	`ATCTGG/TCTCCC`	1	--	us2k¹		0	--	--	--	--
rs199907383^1,2	--	--	102494246(+)	`CTGTCC/GTCCGC`	1	--	us2k¹		0	--	--	--	--

HapMap Linkage Disequilibrium report for FAM138E (102495088 - 102496615 bp)

Structural Variations
Database of Genomic Variants (DGV) 5 variations for FAM138E: About this table

Variant ID	Type	Subtype	PubMed ID
nsv820527	CNV	Duplication	20802225
nsv471523	CNV	Duplication	19718026
esv27561	CNV	Gain	19812545
nsv904622	CNV	Gain	21882294
nsv9315	CNV	Gain+Loss	18304495

Site Specific Mutation Identification with PCR Assays

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(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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(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 FAM138E gene integrated from 10 sources:
(articles sorted by number of sources associating them with FAM138E)

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

Diverse fates of paralogs following segmental duplication of telomeric genes. (PubMed id 15233989)^{1, 3} Wong A.... Ledbetter D.H. (Genomics 2004)
Identification of a novel retina-specific gene located in a subtelomeric region with polymorphic distribution among multiple human chromosomes. (PubMed id 11779631)^{1, 3} Mah N.... Weber B.H.F. (Biochim. Biophys. Acta 2001)

(in PubMed, OMIM, and NCBI Bookshelf)
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		AND	OR
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: 100124412	HGNC: 32335	Ensembl:ENSG00000248893	euGenes: HUgn100124412	ECgene: FAM138E
H-InvDB: FAM138E

(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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Name	Description
PharmGKB entry for FAM138E	Pharmacogenomics, SNPs, Pathways

Intellectual Property for FAM138E gene
(Patent information from GeneIP, Licensable technologies from WIS Yeda, Salk, Tufts, IP news from LifeMap Sciences, Inc.)

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Patent Information for FAM138E gene:
Search GeneIP for patents involving FAM138E

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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FAM138E Gene

Family With Sequence Similarity 138, Member E

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FAM138E Gene

Family With Sequence Similarity 138, Member E

Aliasesfor FAM138E gene

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