YTHDF1 (YTH N6-methyladenosine RNA binding protein F1) - Rat Genome Database

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Gene: YTHDF1 (YTH N6-methyladenosine RNA binding protein F1) Chlorocebus sabaeus
Analyze
Symbol: YTHDF1
Name: YTH N6-methyladenosine RNA binding protein F1
RGD ID: 18661642
Description: ENCODES a protein that exhibits mRNA binding (inferred); N6-methyladenosine-containing RNA reader activity (inferred); ribosome binding (inferred); INVOLVED IN learning (ortholog); memory (ortholog); positive regulation of translational initiation (ortholog); ASSOCIATED WITH autosomal dominant nocturnal frontal lobe epilepsy (ortholog); benign familial infantile seizures 6 (ortholog); colorectal cancer (ortholog); FOUND IN cytoplasm (inferred); cytoplasmic stress granule (inferred); P-body (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: YTH domain-containing family protein 1; YTH N6-methyladenosine RNA binding protein 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12985,373 - 1,010,533 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2985,425 - 1,012,091 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605048,723,072 - 48,745,291 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
YTHDF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12985,373 - 1,010,533 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2985,425 - 1,012,091 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605048,723,072 - 48,745,291 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
YTHDF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382063,195,429 - 63,216,131 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2063,195,429 - 63,216,139 (-)EnsemblGRCh38hg38GRCh38
GRCh372061,826,781 - 61,847,483 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362061,297,226 - 61,317,983 (-)NCBINCBI36Build 36hg18NCBI36
Build 342061,297,228 - 61,317,983NCBI
Celera2058,504,268 - 58,525,021 (-)NCBICelera
Cytogenetic Map20q13.33NCBI
HuRef2058,551,559 - 58,578,606 (-)NCBIHuRef
CHM1_12061,727,941 - 61,748,702 (-)NCBICHM1_1
T2T-CHM13v2.02065,000,752 - 65,021,443 (-)NCBIT2T-CHM13v2.0
Ythdf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392180,546,170 - 180,562,729 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2180,546,170 - 180,562,742 (-)EnsemblGRCm39 Ensembl
GRCm382180,904,377 - 180,920,936 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2180,904,377 - 180,920,949 (-)EnsemblGRCm38mm10GRCm38
MGSCv372180,639,082 - 180,655,641 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362180,833,785 - 180,850,344 (-)NCBIMGSCv36mm8
Celera2184,990,626 - 185,007,152 (-)NCBICelera
Cytogenetic Map2H4NCBI
cM Map2103.5NCBI
Ythdf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83188,402,228 - 188,417,740 (-)NCBIGRCr8
mRatBN7.23168,024,660 - 168,040,172 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3168,024,663 - 168,040,172 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3172,404,856 - 172,420,353 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03181,363,946 - 181,379,443 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03178,025,619 - 178,041,133 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03176,415,911 - 176,431,423 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3176,415,914 - 176,431,423 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03180,125,831 - 180,141,407 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43170,014,277 - 170,029,789 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13169,920,315 - 169,935,825 (-)NCBI
Celera3164,544,900 - 164,560,398 (+)NCBICelera
Cytogenetic Map3q43NCBI
Ythdf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955528935,182 - 951,722 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955528935,182 - 951,722 (+)NCBIChiLan1.0ChiLan1.0
YTHDF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22168,978,501 - 68,999,192 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12068,970,507 - 68,991,196 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02059,575,703 - 59,596,447 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12061,115,366 - 61,135,639 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2061,116,645 - 61,135,769 (-)Ensemblpanpan1.1panPan2
YTHDF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12446,927,218 - 46,940,015 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2446,927,848 - 46,951,949 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2446,111,317 - 46,124,326 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02447,881,084 - 47,894,120 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2447,799,759 - 47,894,081 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12446,896,564 - 46,909,548 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02447,020,531 - 47,033,541 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02447,776,866 - 47,789,883 (-)NCBIUU_Cfam_GSD_1.0
Ythdf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640195,134,237 - 195,149,728 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493651410,587,222 - 10,603,478 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493651410,587,877 - 10,603,373 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
YTHDF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1762,329,302 - 62,341,413 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11762,329,302 - 62,341,312 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Ythdf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474128,917,942 - 28,933,599 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474128,918,466 - 28,933,593 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

endocrine system hemolymphoid system nervous system
High
Medium 36 36
Low 20 24
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000014363   ⟹   ENSCSAP00000012338
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl2985,425 - 1,012,091 (+)Ensembl
RefSeq Acc Id: XM_008011364   ⟹   XP_008009555
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12985,373 - 1,010,533 (+)NCBI
Vero_WHO_p1.0NW_02366605048,723,072 - 48,745,291 (+)NCBI
Sequence:
RefSeq Acc Id: XM_037983015   ⟹   XP_037838943
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366605048,723,139 - 48,745,288 (+)NCBI
Protein Sequences
Protein RefSeqs XP_008009555 (Get FASTA)   NCBI Sequence Viewer  
  XP_037838943 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000012338
  ENSCSAP00000012338.1
Reference Protein Sequences
RefSeq Acc Id: XP_008009555   ⟸   XM_008011364
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RUP9 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000012338   ⟸   ENSCSAT00000014363
RefSeq Acc Id: XP_037838943   ⟸   XM_037983015
- Peptide Label: isoform X2


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000016266 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000014363.1 UniProtKB/TrEMBL
Gene3D-CATH ph1033 like domains UniProtKB/TrEMBL
InterPro YTH_domain UniProtKB/TrEMBL
  YTH_prot UniProtKB/TrEMBL
KEGG Report csab:103242872 UniProtKB/TrEMBL
NCBI Gene YTHDF1 ENTREZGENE
PANTHER PTHR12357 UniProtKB/TrEMBL
  YTH DOMAIN-CONTAINING FAMILY PROTEIN 1 UniProtKB/TrEMBL
Pfam YTH UniProtKB/TrEMBL
PROSITE YTH UniProtKB/TrEMBL
UniProt A0A0D9RUP9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-01-31 YTHDF1  YTH N6-methyladenosine RNA binding protein F1  YTHDF1  YTH N6-methyladenosine RNA binding protein 1  Symbol and/or name change 5135510 APPROVED