YTHDF3 Gene
protein-coding GIFtS: 44
GCID: GC08P064081
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YTH domain family, member 3(Previous name: YTH domain family 3 )
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Aliases
for YTHDF3 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| YTH Domain Family, Member 31 2 | | YTH Domain Family 31 2 | | FLJ316571 | | YTH Domain Family Protein 32 |
Export aliases for YTHDF3 gene to outside databasesPrevious GC identifers: GC08P064132 GC08P064243 GC08P059569 |
Summaries
for YTHDF3 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Gene Wiki entry for YTHDF3
|
Genomic Views
for YTHDF3 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_000008.10 NC_018919.1 NT_008183.19
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the YTHDF3 gene promoter:
AhR Egr-1 FOXD3 LCR-F1 Gfi-1 Arnt AREB6 S8 Chx10 Pax-4a
Other transcription factors
Search SABiosciences Chromatin IP Primers for YTHDF3
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat YTHDF3 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 8q12.3 Ensembl cytogenetic band: 8q12.3 HGNC cytogenetic band: 8q12.2YTHDF3 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 8 GeneLoc Exon Structure GeneLoc location for GC08P064081: view genomic region
(about GC identifiers)
Start:
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64,081,112 bp from pter |
End:
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64,125,346 bp from pter |
Size:
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44,235 bases |
Orientation:
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plus strand |
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Proteins
for YTHDF3 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: YTHD3_HUMAN, Q7Z739 (See
protein sequence)Recommended Name: YTH domain family protein 3 Size: 585 amino acids; 63861 Da
Secondary accessions: B3KXL4 Q63Z37 Q659A3Explore the universe of human proteins at neXtProt for YTHDF3: NX_Q7Z739
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q7Z739
YTHDF3 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_689971.4
Human Recombinant Protein Products:
YTHDF3 Antibody Products:
Assay Products for YTHDF3: |
Protein
Domains /
Families
for YTHDF3 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
YTHDF3 for domains About GeneDecksing
1 InterPro domain/family:Graphical View of Domain Structure for InterPro Entry Q7Z739ProtoNet protein and cluster: Q7Z739 1 Blocks protein family: IPB007275 YT521-B-like protein
UniProtKB/Swiss-Prot: YTHD3_HUMAN, Q7Z739Similarity: Contains 1 YTH domain |
Function
for YTHDF3 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
|
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for YTHDF3 (see all 5)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for YTHDF3
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector: YTHDF3 (NM_152758) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for YTHDF3 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat YTHDF3 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for YTHDF3 |
Gene Ontology (GO): 1 molecular function term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005515 | protein binding |
IPI | -- |
YTHDF3 for ontologies About GeneDecksing
|
Pathways & Interactions
for YTHDF3 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 YTHDF3
2 Interacting proteins for YTHDF3 (Q7Z7391, 3) via UniProtKB, MINT, STRING, and/or I2DAbout this table
|
Drugs & Compounds
for YTHDF3 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 YTHDF3
Search CenterWatch for drugs/clinical trials and news about YTHDF3 / YTHD3
|
Transcripts
for YTHDF3 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 YTHDF3 gene: NM_152758.4 Unigene Cluster for YTHDF3: YTH domain family, member 3 Hs.491861 [show with all ESTs]Unigene Representative Sequence: NM_15275818 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000521674(lincRNA)(uc003xuy.3 uc010lys.3 uc003xuz.3) ENST00000522282(lincRNA)
ENST00000519428(lincRNA) ENST00000523455(lincRNA) ENST00000517371(lincRNA) ENST00000524135(lincRNA)(uc003xva.3 uc011len.2)
ENST00000518763(lincRNA) ENST00000518438(lincRNA) ENST00000517375(lincRNA) ENST00000521547(lincRNA) ENST00000520640(lincRNA)
ENST00000523056(lincRNA) ENST00000517303(lincRNA) ENST00000518373(lincRNA) ENST00000539294(lincRNA) ENST00000542911(lincRNA)
ENST00000434924(lincRNA) ENST00000339066(lincRNA)
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for YTHDF3 (see all 5)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for YTHDF3
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: YTHDF3 (NM_152758) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for YTHDF3 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat YTHDF3 |
Additional cDNA sequence: AK002173.1 AK056219.1 AK093081.1 AK127574.1 AK298544.1 AL050081.1 AL831816.1 AL832005.1 AL832335.1 AL832369.1 BC037492.1 BC052970.1 BX537996.2 11 DOTS entries: DT.102825847 DT.91749167 DT.100652083 DT.95268981 DT.100652089 DT.100666742 DT.102825850 DT.95260348 DT.95268980 DT.95355192 DT.91808969 24/285 AceView cDNA sequences (see all 285): AI918717 AA826923 BM985066 CB105178 BX390013 BQ771546 AA128191 AA492379 BM697489 BM454875 BM477044 AI967934 BM678751 N93460 Z43691 NM_152758 BC052970 BM981239 BQ428174 CK904693 AI985539 BE044015 AI582541 BM720409
GeneLoc Exon Structure
|
Expression
for YTHDF3 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
| YTHDF3 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: AGAATTTGAA
About this image
See YTHDF3 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for YTHDF3
SOURCE GeneReport for Unigene cluster: Hs.491861
SABiosciences Custom PCR Arrays for YTHDF3
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for YTHDF3
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat YTHDF3 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat YTHDF3 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat YTHDF3 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for YTHDF3 |
Orthologs
for YTHDF3 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 eukaryotes.
Orthologs for YTHDF3 gene from 5/9 species (see all 9) About this table
| Organism |
Taxonomic
classification |
Gene |
Description |
Human
Similarity |
Orthology
Type |
Details |
mouse
(Mus musculus) |
Mammalia |
Ythdf31 , 5 |
YTH domain family 31, 5 |
96.41(n)1
98.8(a)1 |
|
3 (4.04 cM)5
2290961 NM_172677.31 NP_766265.31
161831835 |
chicken
(Gallus gallus) |
Aves |
YTHDF31 |
YTH domain family, member 3 |
90.39(n)
96.4(a) |
|
421145 NM_001006391.1 NP_001006391.1 |
tropical clawed frog
(Xenopus tropicalis) |
Amphibia |
Str.89342 |
Transcribed sequence with weak similarity to protein more |
82.49(n) |
|
CF239562.1 |
zebrafish
(Danio rerio) |
Actinopterygii |
BC045342.12 |
-- |
78.42(n) |
|
334191 BC045342.1 |
barley
(Hordeum vulgare) |
Liliopsida |
Hv.55682 |
Transcribed sequence with weak similarity to protein more |
73.48(n) |
|
AV914848.1 |
ENSEMBL Gene Tree for YTHDF3 (if available)
TreeFam Gene Tree for YTHDF3 (if available) |
Paralogs
for YTHDF3 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| -- |
Genomic Variants
for YTHDF3 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 8 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for YTHDF3 (64081112 - 64125346 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 1 variation for YTHDF3
1 CNV: 4596 | SABiosciences Cancer Mutation PCR Assays |
|
Disorders
/ Diseases
for YTHDF3 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
| -- |
Publications
for YTHDF3 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 YTHDF3 gene, integrated from 9 sources (see all 17):
(articles sorted by number of sources associating them with YTHDF3) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 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, 3 Strausberg R.L....Marra M.A. (2002)
- Global landscape of HIV-human protein complexes. (PubMed id 22190034)1 Jager S....Krogan N.J. (2012)
- Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
- Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
- Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (2010)
- The protein network surrounding the human telomere re peat binding factors TRF1, TRF2, and POT1. (PubMed id 20811636)1 Giannone R.J....Liu Y. (2010)
- A quantitative atlas of mitotic phosphorylation. (PubMed id 18669648)2 Dephoure N.... Gygi S.P. (2008)
- The full-ORF clone resource of the German cDNA consortium. (PubMed id 17974005)2 Bechtel S.... Schupp I. (2007)
|
External Searches for YTHDF3 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing YTHDF3 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing YTHDF3 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing YTHDF3 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 YTHDF3 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for YTHDF3 gene:
Search GeneIP for patents involving YTHDF3
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for YTHDF3 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
|
 | |
 | |
 |
| | |  | Browse OriGene Antibodies | | OriGene shRNA RFP for YTHDF3 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for YTHDF3 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for YTHDF3 | | | OriGene Protein Over-expression Lysate for YTHDF3 | | Browse OriGene Fluorogenic Cell Assay Kits | | | Browse OriGene siRNAs | | OriGene 3'-UTR Clone for YTHDF3 | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for YTHDF3 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for YTHDF3 | | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | | Browse OriGene full length recombinant human proteins expressed in human HEK293 cells | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling | | | OriGene Custom Antibody Services for YTHDF3 | | OriGene Custom Protein Services for YTHDF3 | | | OriGene Custom Immunoassay Development | | |
| |
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 |
| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat YTHDF3 | | | Search QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing YTHDF3 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat YTHDF3 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat YTHDF3 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat YTHDF3 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat YTHDF3 |
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 |  |  |  | |
| | | | Search Tocris compounds for YTHDF3 |
| |  |  |  |  | | | | |
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 | | | YTHDF3 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for YTHDF3 |
|  |  |  | | | | ThermoFisher Antibodies for YTHDF3 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat YTHDF3 |
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