YTHDF2 YTH N6-methyladenosine RNA binding protein F2 [Homo sapiens (human)] - Gene

Summary

Official Symbol: YTHDF2provided by HGNC
Official Full Name: YTH N6-methyladenosine RNA binding protein F2provided by HGNC
Primary source: HGNC:HGNC:31675
See related: Ensembl:ENSG00000198492 MIM:610640; AllianceGenome:HGNC:31675
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: DF2; CAHL; HGRG8; NY-REN-2
Summary: This gene encodes a member of the YTH (YT521-B homology) superfamily containing YTH domain. The YTH domain is typical for the eukaryotes and is particularly abundant in plants. The YTH domain is usually located in the middle of the protein sequence and may function in binding to RNA. In addition to a YTH domain, this protein has a proline rich region which may be involved in signal transduction. An Alu-rich domain has been identified in one of the introns of this gene, which is thought to be associated with human longevity. In addition, reciprocal translocations between this gene and the Runx1 (AML1) gene on chromosome 21 has been observed in patients with acute myeloid leukemia. This gene was initially mapped to chromosome 14, which was later turned out to be a pseudogene. Alternatively spliced transcript variants encoding different isoforms have been identified in this gene. [provided by RefSeq, Oct 2012]
Expression: Ubiquitous expression in bone marrow (RPKM 23.8), testis (RPKM 20.2) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 1p35.3

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	1	NC_000001.11 (28736624..28769775)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	1	NC_060925.1 (28578615..28611771)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	1	NC_000001.10 (29063136..29096287)

Chromosome 1 - NC_000001.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

YTHDF2 regulates MSS51 expression contributing to mitochondria dysfunction of granulosa cells in polycystic ovarian syndrome patients.
Title: YTHDF2 regulates MSS51 expression contributing to mitochondria dysfunction of granulosa cells in polycystic ovarian syndrome patients.
miR615-3p inhibited FBLN1 and osteogenic differentiation of umbilical cord mesenchymal stem cells by associated with YTHDF2 in a m[6]A-miRNA interaction manner.
Title: miR615-3p inhibited FBLN1 and osteogenic differentiation of umbilical cord mesenchymal stem cells by associated with YTHDF2 in a m(6)A-miRNA interaction manner.
Targeting YTHDF2 inhibits tumorigenesis of diffuse large B-cell lymphoma through ACER2-mediated ceramide catabolism.
Title: Targeting YTHDF2 inhibits tumorigenesis of diffuse large B-cell lymphoma through ACER2-mediated ceramide catabolism.
The tumor-intrinsic role of the m[6]A reader YTHDF2 in regulating immune evasion.
Title: The tumor-intrinsic role of the m(6)A reader YTHDF2 in regulating immune evasion.
lncRNA JPX Promotes Tumor Progression by Interacting with and Destabilizing YTHDF2 in Cutaneous Melanoma.
Title: lncRNA JPX Promotes Tumor Progression by Interacting with and Destabilizing YTHDF2 in Cutaneous Melanoma.
Smooth Muscle Ythdf2 Abrogation Ameliorates Pulmonary Vascular Remodeling by Regulating Myadm Transcript Stability.
Title: Smooth Muscle Ythdf2 Abrogation Ameliorates Pulmonary Vascular Remodeling by Regulating Myadm Transcript Stability.
Hereditary spastic paraparesis type 18 (SPG18): new ERLIN2 variants in a series of Italian patients, shedding light upon genetic and phenotypic variability.
Title: Hereditary spastic paraparesis type 18 (SPG18): new ERLIN2 variants in a series of Italian patients, shedding light upon genetic and phenotypic variability.
N[6]-methyladenosine (m[6]A) reader YTHDF2 accelerates endothelial cells ferroptosis in cerebrovascular atherosclerosis.
Title: N(6)-methyladenosine (m(6)A) reader YTHDF2 accelerates endothelial cells ferroptosis in cerebrovascular atherosclerosis.
BCLAF1 drives esophageal squamous cell carcinoma progression through regulation of YTHDF2-dependent SIX1 mRNA degradation.
Title: BCLAF1 drives esophageal squamous cell carcinoma progression through regulation of YTHDF2-dependent SIX1 mRNA degradation.
[Porphyromonas gingivalis infection facilitates immune escape of esophageal cancer by enhancing YTHDF2-mediated Fas degradation].
Title: [Porphyromonas gingivalis infection facilitates immune escape of esophageal cancer by enhancing YTHDF2-mediated Fas degradation].

Submit: New GeneRIF Correction See all GeneRIFs (101)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

G19682 (e-PCR)
- UniSTS:62063

A001V19 (e-PCR)
- UniSTS:62064

D14S811E (e-PCR)
- UniSTS:153789

HGRG8 (e-PCR)
- UniSTS:278522

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables C5-methylcytidine-containing RNA reader activity	IDA Inferred from Direct Assay more info	PubMed
enables N6-methyladenosine-containing RNA reader activity	IBA Inferred from Biological aspect of Ancestor more info
enables N6-methyladenosine-containing RNA reader activity	IDA Inferred from Direct Assay more info	PubMed
enables RNA binding	HDA more info	PubMed
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in embryonic morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in endothelial to hematopoietic transition	ISS Inferred from Sequence or Structural Similarity more info
involved_in gamete generation	ISS Inferred from Sequence or Structural Similarity more info
involved_in hematopoietic stem cell proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in humoral immune response	TAS Traceable Author Statement more info	PubMed
involved_in innate immune response	IEA Inferred from Electronic Annotation more info
involved_in mRNA catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in mRNA destabilization	IBA Inferred from Biological aspect of Ancestor more info
involved_in mRNA destabilization	IDA Inferred from Direct Assay more info	PubMed
involved_in mRNA destabilization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of Notch signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of stem cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of type I interferon-mediated signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in oocyte maturation	ISS Inferred from Sequence or Structural Similarity more info
involved_in organelle assembly	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of cap-independent translational initiation	IDA Inferred from Direct Assay more info	PubMed
NOT involved_in positive regulation of translational initiation	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of cell adhesion	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of hematopoietic stem cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of mRNA stability	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of mRNA stability	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of meiotic cell cycle process involved in oocyte maturation	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of neurogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of neurogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of rRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in spermatogonial cell division	ISS Inferred from Sequence or Structural Similarity more info
involved_in stress granule assembly	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in P-body	IDA Inferred from Direct Assay more info	PubMed
located_in centriolar satellite	IDA Inferred from Direct Assay more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasmic ribonucleoprotein granule	IDA Inferred from Direct Assay more info
located_in cytoplasmic stress granule	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: YTH domain-containing family protein 2

Names: 9430020E02Rik; CLL-associated antigen KW-14; YTH N(6)-methyladenosine RNA binding protein 2; YTH N6-methyladenosine RNA binding protein 2; YTH domain family, member 2; high-glucose-regulated protein 8; renal carcinoma antigen NY-REN-2

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

NG_016746.2 RefSeqGene

Range

5318..38153

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001172828.2 → NP_001166299.1 YTH domain-containing family protein 2 isoform 2

See identical proteins and their annotated locations for NP_001166299.1

Status: REVIEWED

Description

Transcript Variant: This variant (3) lacks an exon in the 5' region, which results in a downstream AUG start codon, as compared to variant 1. The resulting isoform (2) is shorter at the N-terminus, as compared to isoform 1.

Source sequence(s)

AL356786, AL645729

Consensus CDS

CCDS53287.1

UniProtKB/TrEMBL

B5BU99

Related

ENSP00000439394.1, ENST00000541996.5

Conserved Domains (1) summary

pfam04146
Location:361 → 494

YTH; YT521-B-like domain
NM_001173128.2 → NP_001166599.1 YTH domain-containing family protein 2 isoform 1

See identical proteins and their annotated locations for NP_001166599.1

Status: REVIEWED

Description

Transcript Variant: This variant (2) has a split 5' UTR exon, as compared to variant 1. Both variants 1 and 2 encode the same isoform (1).

Source sequence(s)

AL356786, AL645729

Consensus CDS

CCDS41296.1

UniProtKB/Swiss-Prot

A6NKG4, A8K966, B4E1G7, D3DPM8, Q5VSZ9, Q8TDH0, Q9BUJ5, Q9Y5A9

UniProtKB/TrEMBL

B5BU99

Related

ENSP00000444660.1, ENST00000542507.5

Conserved Domains (1) summary

pfam04146
Location:411 → 544

YTH; YT521-B-like domain
NM_016258.3 → NP_057342.2 YTH domain-containing family protein 2 isoform 1

See identical proteins and their annotated locations for NP_057342.2

Status: REVIEWED

Description

Transcript Variant: This variant (1) encodes the longer isoform (1).

Source sequence(s)

AL356786, AL645729

Consensus CDS

CCDS41296.1

UniProtKB/Swiss-Prot

A6NKG4, A8K966, B4E1G7, D3DPM8, Q5VSZ9, Q8TDH0, Q9BUJ5, Q9Y5A9

UniProtKB/TrEMBL

B5BU99

Related

ENSP00000362918.3, ENST00000373812.8

Conserved Domains (1) summary

pfam04146
Location:411 → 544

YTH; YT521-B-like domain