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Category Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21

GIFtS
-

SNHG11 Gene

RNA gene GIFtS: 31
GCID: GC20P037075

small nucleolar RNA host gene 11 (non-protein coding)

(Previous name: chromosome 20 open reading frame 198 )
(Previous symbol: C20orf198)

Explore 1 disease affiliated with
SNHG11 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 8

Aliases
Small Nucleolar RNA Host Gene 11 (Non-Protein Coding)¹ ²
C20orf198¹ ²
LINC00101¹ ²
Chromosome 20 Open Reading Frame 198¹
NCRNA00101²

External Ids:	HGNC: 25046¹	Entrez Gene: 128439²	Ensembl: ENSG00000174365⁷

ORGUL members:
	NONCODE:n376569 n344501 n377699 n378731 n378028	see all 13

Export aliases for SNHG11 gene to outside databases

Previous GC identifers: GC20P036520 GC20P036523 GC20P036526 GC20P036529 GC20P033810

(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 SNHG11:

This gene is a member of the non-protein-coding multiple snoRNA host gene family. Two snoRNAs are derived from the

introns of this host gene. Although many alternative splice variants have been observed, the gene is thought to have

no protein-coding potential. (provided by RefSeq, Jul 2008)

(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

RefSeq DNA sequence:

NC_000020.10 NC_018931.1 NT_011362.10

Regulatory elements:

SABiosciences Regulatory transcription factor binding sites in the SNHG11 gene promoter:
GR Elk-1 GR-beta HSF1 (long) HSF1short GR-alpha POU3F2 RORalpha2
Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids

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Epigenetics:

QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SNHG11

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

Entrez Gene cytogenetic band: 20q11.23 Ensembl cytogenetic band: 20q11.23 HGNC cytogenetic band: 20q11.23

SNHG11 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SNHG11 gene location

GeneLoc information about chromosome 20 GeneLoc Exon Structure

GeneLoc location for GC20P037075: view genomic region (about GC identifiers)

Start:	37,075,221 bp from pter	End:	37,079,564 bp from pter
Size:	4,344 bases	Orientation:	plus strand

ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for SNHG11

(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

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About This Section

Interactions:

Search SABiosciences Gene Network Central^TM Interacting Genes and Proteins Networks for SNHG11

(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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(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

REFSEQ mRNAs for SNHG11 gene:

NM_139016.2

Unigene Cluster for SNHG11:

Small nucleolar RNA host gene 11 (non-protein coding)

Hs.16936 [show with all ESTs]

Unigene Representative Sequence: AK091209

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

ENST00000418383(lincRNA) ENST00000444816(lincRNA) ENST00000453698(lincRNA)(uc002xiq.1) ENST00000457218(lincRNA)

ENST00000432153(lincRNA) ENST00000359074(lincRNA) ENST00000400436(lincRNA)(uc002xir.1 uc002xis.1 uc002xit.1)

ENST00000483342(lincRNA)(uc002xiu.1) ENST00000442419(lincRNA) ENST00000434729(lincRNA) ENST00000449351(lincRNA)

ENST00000440918(lincRNA) ENST00000437028(lincRNA) ENST00000421599(lincRNA) ENST00000420006(lincRNA)

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Additional cDNA sequence:

AF454939.1 AF497716.1 AK055434.1 AK091209.1 AK290212.1 BC040237.1 NR_003239.1

12 DOTS entries:

DT.100818998 DT.100819002 DT.40270856 DT.91746588 DT.100818997 DT.101965303 DT.120817917 DT.120817930

DT.446553 DT.100028340 DT.100818996 DT.97842894

24/143 AceView cDNA sequences (see all 143):

CB147515 T25024 BM727499 BU620235 AW411323 BQ709000 BQ685452 AF497716

CB142876 BI438282 BG753439 BM717353 BQ777178 BF525766 BQ888199 CA454357

BQ001587 AI818222 BU740743 CA308656 AW299397 AI457598 BQ778294 BG323917

GeneLoc Exon Structure

5/13 Alternative Splicing Database (ASD) splice patterns (SP) for SNHG11 (see all 13) About this scheme

ExUns:	1a	·	1b	·	1c	^	2a	·	2b	·	2c	·	2d	^	3a	·	3b	^	4	^	5	^	6a	·	6b	·	6c	·	6d	^	7a	·	7b	·	7c	·	7d	·	7e
SP1:											-		-										-				-		-
SP2:													-						-				-				-		-
SP3:																			-				-				-		-
SP4:													-						-				-
SP5:													-

ECgene alternative splicing isoforms for SNHG11

(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 SNHG11:NONCODE

SNHG11 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: GCCCAGGAAG

About this image

SNHG11 expression in embryonic tissues and stem cells
Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine About this table

10/14 LifeMap In Vivo Development Anatomical Compartments/Cells (see all 14)

Tissue

Anatomical Compartment

Cell

Category (developmental path)

Gut Tube

Midgut

Midgut Endoderm Cells

Endoderm

Spinal Cord

Spinal Dorsal Columns

Dorsal Spinal Cord Progenitor Cells

Spinal Cord

Spinal Ventral Columns

Ventral Spinal Cord Progenitor Cells

Motor Neurons

Brain

Brain

Brain

Brain

Eye

Gut Tube

Neural Tube

Expression:

Positive

Negative

Selective marker

Experimental details:

Curated

Microarrays

In-situ hybridization

Genevestigator expression for SNHG11

SOURCE GeneReport for Unigene cluster: Hs.16936

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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 SNHG11 gene from 1 species (see representative species ) About this table

Organism	Taxonomic classification	Gene	Description	Human Similarity	Orthology Type	Details
mouse (Mus musculus)	Mammalia	Snhg11⁵	small nucleolar RNA host gene 11	--		2 (78.72 cM) 158375638

ENSEMBL Gene Tree for SNHG11 (if available)
TreeFam Gene Tree for SNHG11 (if available)

(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 20 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
Genomic Data					Transcription Related Data				Allele Frequencies
				--	--	--		--	--
rs190646440^1,2		--	37073541(+)	`GCACGG/TGGGAG`	1	--	us2k¹		0	--	--	--	--
rs146526352^1,2		--	37073652(+)	`TGTGCA/GCCTGT`	1	--	us2k¹		0	--	--	--	--
rs182904100^1,2		--	37073674(+)	`CTCAGA/GAGGCT`	1	--	us2k¹		0	--	--	--	--
rs11086616^1,2	C	--	37073779(+)	`AAAAAA/-AAAAA`	1	--	us2k¹ trp³		1		NA	2
rs188161422^1,2		--	37073838(+)	`CGCTAC/GTGCTT`	1	--	us2k¹		0	--	--	--	--
rs6070201^1,2		--	37074178(+)	`ttgtgC/Tagtac`	1	--	us2k¹		0	--	--	--	--
rs7509253^1,2	C	--	37074180(+)	`GTGCAC/GTACAC`	1	--	us2k¹		0	--	--	--	--
rs805530^1,2	C,F,A,H	--	37074199(+)	`CAACCG/ATATGT`	1	--	us2k¹ tfbs³		39		NA EA NS WA CSA	3583
rs150145350^1,2		--	37074294(+)	`AATCAA/GAGCAA`	1	--	us2k¹		0	--	--	--	--
rs145486776^1,2		--	37074325(+)	`CCAGAA/GAGAGA`	1	--	us2k¹		0	--	--	--	--

HapMap Linkage Disequilibrium report for SNHG11 (37075221 - 37079564 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 4 variations for SNHG11
4 CNVs: 9824 8884 3217 4101

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, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section

SNHG11 for disorders About GeneDecksing

1 disease for SNHG11: About MalaCards

obesity

Human Genome Epidemiology (HuGE) Navigator: SNHG11 (1 document)

Export disorders for SNHG11 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 SNHG11 gene integrated from 9 sources:
(articles sorted by number of sources associating them with SNHG11)

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

Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)^{1, 3} Strausberg R.L....Marra M.A. (2002)
Use of genome-wide expression data to mine the ' Gray Zone' of GWA studies leads to novel candidate obesity genes. (PubMed id 20532202)¹ Naukkarinen J....Peltonen L. (2010)
Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)¹ Ota T.... Sugano S. (2004)
The sequence of the human genome. (PubMed id 11181995)¹ Venter J.C.... Zhu X. (2001)

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

		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)
About This Section

Entrez Gene: 128439	HGNC: 25046	AceView: LOC128439	Ensembl:ENSG00000174365	euGenes: HUgn128439
ECgene: SNHG11	H-InvDB: SNHG11

(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 SNHG11	Pharmacogenomics, SNPs, Pathways

Intellectual Property for SNHG11 gene
(Patent information from GeneIP, Licensable technologies from WIS Yeda, Salk, Tufts, IP news from LifeMap Sciences, Inc.)

About This Section

Patent Information for SNHG11 gene:
Search GeneIP for patents involving SNHG11

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

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SNHG11 Gene

small nucleolar RNA host gene 11 (non-protein coding)

Aliases
for SNHG11 gene

Summaries
for SNHG11 gene

Genomic Views
for SNHG11 gene

Proteins
for SNHG11 gene

Protein Domains /
Families
for SNHG11 gene

Function
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SNHG11 Gene

small nucleolar RNA host gene 11 (non-protein coding)

Aliasesfor SNHG11 gene

Summariesfor SNHG11 gene

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Proteinsfor SNHG11 gene

Protein Domains /Familiesfor SNHG11 gene

Functionfor SNHG11 gene

Pathways & Interactionsfor SNHG11 gene

Drugs & Compoundsfor SNHG11 gene

Transcriptsfor SNHG11 gene

Expression for SNHG11 gene

Orthologsfor SNHG11 gene

Paralogsfor SNHG11 gene

Genomic Variantsfor SNHG11 gene

Disorders / Diseasesfor SNHG11 gene

Publicationsfor SNHG11 gene

External Searches for SNHG11 gene

Genome Databases showing SNHG11 gene

Other Databases showing SNHG11 gene

Specialized Databases showing SNHG11 gene

Intellectual Propertyfor SNHG11 gene

Productsfor SNHG11 gene

View Random Gene

Aliases
for SNHG11 gene

Summaries
for SNHG11 gene

Genomic Views
for SNHG11 gene

Proteins
for SNHG11 gene

Protein Domains /
Families
for SNHG11 gene

Function
for SNHG11 gene

Pathways & Interactions
for SNHG11 gene

Drugs & Compounds
for SNHG11 gene

Transcripts
for SNHG11 gene

Expression
for SNHG11 gene

Orthologs
for SNHG11 gene

Paralogs
for SNHG11 gene

Genomic Variants
for SNHG11 gene

Disorders / Diseases
for SNHG11 gene

Publications
for SNHG11 gene

Intellectual Property
for SNHG11 gene

Products
for SNHG11 gene