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small nucleolar RNA host gene 12 (non-protein coding)(Previous name: chromosome 1 open reading frame 79 )
(Previous symbol: C1orf79)
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Aliases
for SNHG12 gene
(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 3
| Aliases |
|---|
| Small Nucleolar RNA Host Gene 12 (Non-Protein Coding)1 2 | | NCRNA001002 | | C1orf791 2 3 | | RP4-669K10.52 | | LINC001001 2 | | TRG-113 | | PNAS-1231 | | Transformation-Related Gene 11 Protein3 | | Chromosome 1 Open Reading Frame 791 | | |
| External Ids: | HGNC: 300621 | Entrez Gene: 850282 | Ensembl: ENSG000001979897 | UniProtKB: Q9BXW33 |
Export aliases for SNHG12 gene to outside databasesPrevious GC identifers: GC01U902257 GC01M028784
|---|
Summaries
for SNHG12 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
-- |
Genomic Views
for SNHG12 gene
(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_000001.10 NC_018912.1 NT_004610.19
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the SNHG12 gene promoter:
GR AML1a GR-beta Meis-1b AREB6 SEF-1 (1) Meis-1a GR-alpha TGIF Meis-1
Other transcription factors
Search SABiosciences Chromatin IP Primers for SNHG12
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SNHG12 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 1p35.3 Ensembl cytogenetic band: 1p35.3 HGNC cytogenetic band: 1p35.3SNHG12 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 1 GeneLoc Exon Structure GeneLoc location for GC01M028905: view genomic region
(about GC identifiers)
Start:
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28,905,050 bp from pter |
End:
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28,909,495 bp from pter |
Size:
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4,446 bases |
Orientation:
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minus strand |
ORGUL member locations:
Legend (see complete legend)
- n379162
- n379132
- n380320
- n379114
- n379183
- n379180
- n381092
- n379217
- n379255
- n379215
- n379224
- n379128
- n379115
28905049 28907272 28909495 chr1
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Proteins
for SNHG12 gene
(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/Swiss-Prot: SNH12_HUMAN, Q9BXW3 (See
protein sequence)Recommended Name: Putative uncharacterized protein SNHG12 Size: 62 amino acids; 6988 Da
Caution: Product of a dubious CDS predictionExplore the universe of human proteins at neXtProt for SNHG12: NX_Q9BXW3
SNHG12 Protein expression data from MOPED and PaxDb: --
Human Recombinant Protein Products:
SNHG12 Antibody Products:
Assay Products for SNHG12: |
Protein
Domains /
Families
for SNHG12 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
| ProtoNet protein and cluster: Q9BXW3 |
Function
for SNHG12 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SNHG12 |
|
Pathways & Interactions
for SNHG12 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 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 CentralTM Interacting Genes and Proteins Networks for SNHG12
|
Drugs & Compounds
for SNHG12 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 SNHG12
Search CenterWatch for drugs/clinical trials and news about SNHG12 
|
Transcripts
for SNHG12 gene(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,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for SNHG12 gene: NM_053040.1 Unigene Cluster for SNHG12: Small nucleolar RNA host gene 12 (non-protein coding) Hs.632377 [show with all ESTs]Unigene Representative Sequence: BC11155312 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000464612(lincRNA) ENST00000475441(lincRNA) ENST00000531126(lincRNA) ENST00000461448(lincRNA)(uc001bqn.3)
ENST00000470977(lincRNA)(uc001bqk.3 uc001bql.3) ENST00000474814(lincRNA)(uc001bqo.3)
ENST00000481368(lincRNA)(uc001bqm.3) ENST00000481220(lincRNA) ENST00000488745(lincRNA) ENST00000483436(lincRNA)
ENST00000464115(lincRNA) ENST00000461832(lincRNA)
Additional cDNA sequence: AF277181.1 AJ609466.1 AK092096.1 AY277594.1 BC022205.1 BC034611.1 BC045792.1 BC064589.1 BC068048.1 BC107730.1 BC111553.1 NR_002976.1 NR_024127.1 11 DOTS entries: DT.100026537 DT.40277411 DT.99996968 DT.87015908 DT.100817708 DT.211434 DT.432523 DT.100026540 DT.95294171 DT.100817710 DT.97841807 24/91 AceView cDNA sequences (see all 91): AA417948 CA495298 CB178449 CA444812 AK092096 BM142620 BC064589 AI632100 AW084085 BU786162 BC068048 BM785231 AI962298 BG231656 BU786225 AA581708 BE504246 AA631621 AA905228 BX116925 AJ712706 BE794361 BU732252 AI867793
GeneLoc Exon Structure
5/10 Alternative Splicing Database (ASD) splice patterns (SP) for SNHG12 (see all 10) About this scheme
| ExUns: | 1a | · | 1b | · | 1c | ^ | 2a | · | 2b | · | 2c | ^ | 3a | · | 3b | · | 3c | · | 3d | ^ | 4a | · | 4b | · | 4c | · | 4d | · | 4e | ^ | 5 | ^ | 6a | · | 6b |
|---|
|
| SP1: | | | | | | | | | - | | - | | | | - | | - | | - | | - | | | | | | - | | - | | | | | | | | |
| SP2: | | | | | | | | | | | - | | | | - | | - | | - | | - | | | | - | | - | | - | | | | | | | | |
| SP3: | | | | | | | | | - | | - | | | | - | | - | | - | | - | | | | | | | | | | | | | | | | |
| SP4: | | | | | | | | | | | - | | | | - | | - | | - | | - | | | | | | | | | | | | | | | | |
| SP5: | | | | | | | | | - | | - | | | | | | | | | | | | | | | | | | | | | | | | | |
ECgene alternative splicing isoforms for SNHG12
|
Expression
for SNHG12 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,
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 SNHG12:none
SNHG12 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: CTAATGCAAA
About this image
Genevestigator expression for SNHG12
SOURCE GeneReport for Unigene cluster: Hs.632377
SABiosciences Custom PCR Arrays for SNHG12
Primer
Products: |  | 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 SNHG12 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SNHG12 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SNHG12 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SNHG12 |
Orthologs
for SNHG12 gene
(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 SNHG12 gene from 1 species (see representative species ) About this table
| Organism |
Taxonomic
classification |
Gene |
Description |
Human
Similarity |
Orthology
Type |
Details |
mouse
(Mus musculus) |
Mammalia |
Snhg125 |
small nucleolar RNA host gene 12 |
-- |
|
4 (65.16 cM) 132308678 |
ENSEMBL Gene Tree for SNHG12 (if available)
TreeFam Gene Tree for SNHG12 (if available) |
Paralogs
for SNHG12 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| -- |
Genomic Variants
for SNHG12 gene(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
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 1 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for SNHG12 (28905050 - 28909495 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for SNHG12: -- | SABiosciences Cancer Mutation PCR Assays |
|
Disorders
/ Diseases
for SNHG12 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
|
SNHG12 for disorders About GeneDecksing
2  diseases for SNHG12: About MalaCardsmast cell neoplasm filariasis
1 disease from the University of Copenhagen DISEASES database for SNHG12:Mast cell neoplasm Export disorders for SNHG12 gene to outside databases
|
Publications
for SNHG12 gene (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 SNHG12 gene integrated from 9 sources:
(articles sorted by number of sources associating them with SNHG12) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (2006)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1 Ota T.... Sugano S. (2004)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
- Hepatitis C virus core protein interacts with 14-3-3 protein and activates the kinase Raf-1. (PubMed id )2 Aoki H.... Hino O. (2000)
|
External Searches for SNHG12 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing SNHG12 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing SNHG12 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing SNHG12 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
|
| Name | Description |
| PharmGKB entry for SNHG12 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for SNHG12 gene:
Search GeneIP for patents involving SNHG12
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for SNHG12 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, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, 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
About This Section
|
 | |
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 |
 |
|  | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat SNHG12 | | | Search QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SNHG12 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SNHG12 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SNHG12 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SNHG12 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SNHG12 |
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 |  |  |  | |
| | | | Search Tocris compounds for SNHG12 |
| |  |  |  |  | | | | |
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 |
 |
 | | | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SNHG12 |
|  |  |  | | | | Search ThermoFisher Antibodies for SNHG12 |
| | | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat SNHG12 |
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GeneCards Homepage -
Last full update: 19 Mar 2013 -
Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013
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